-- dump date 20120504_141650 -- class Genbank::misc_feature -- table misc_feature_note -- id note 331636000001 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 331636000002 Uncharacterized protein family (UPF0137); Region: UPF0137; pfam03677 331636000003 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 331636000004 active site 331636000005 catalytic residues [active] 331636000006 DNA binding site [nucleotide binding] 331636000007 Int/Topo IB signature motif; other site 331636000008 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 331636000009 active site 331636000010 catalytic residues [active] 331636000011 DNA binding site [nucleotide binding] 331636000012 Int/Topo IB signature motif; other site 331636000013 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 331636000014 DnaB-like helicase C terminal domain; Region: DnaB_C; pfam03796 331636000015 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 331636000016 Walker A motif; other site 331636000017 ATP binding site [chemical binding]; other site 331636000018 Walker B motif; other site 331636000019 DNA binding loops [nucleotide binding] 331636000020 Chlamydia virulence protein PGP3-D; Region: Chlam_vir; pfam05475 331636000021 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 331636000022 dimer interface [polypeptide binding]; other site 331636000023 active site 331636000024 aspartate-rich active site metal binding site; other site 331636000025 allosteric magnesium binding site [ion binding]; other site 331636000026 Schiff base residues; other site 331636000027 NADH:ubiquinone oxidoreductase, Na(+)-translocating, A subunit; Region: nqrA; TIGR01936 331636000028 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 331636000029 transcript cleavage factor/unknown domain fusion protein; Validated; Region: PRK06330 331636000030 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 331636000031 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 331636000032 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 331636000033 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 331636000034 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331636000035 homodimer interface [polypeptide binding]; other site 331636000036 catalytic residue [active] 331636000037 rod shape-determining protein MreC; Region: MreC; pfam04085 331636000038 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 331636000039 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636000040 Family description; Region: UvrD_C_2; cl15862 331636000041 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 331636000042 H+ Antiporter protein; Region: 2A0121; TIGR00900 331636000043 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 331636000044 putative substrate translocation pore; other site 331636000045 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 331636000046 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 331636000047 active site residue [active] 331636000048 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 331636000049 ribosomal protein S4, bacterial/organelle type; Region: rpsD_bact; TIGR01017 331636000050 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 331636000051 RNA binding surface [nucleotide binding]; other site 331636000052 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 331636000053 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 331636000054 AP (apurinic/apyrimidinic) site pocket; other site 331636000055 DNA interaction; other site 331636000056 Metal-binding active site; metal-binding site 331636000057 MviN-like protein; Region: MVIN; pfam03023 331636000058 Effector from type III secretion system; Region: Effector_1; pfam04518 331636000059 Effector from type III secretion system; Region: Effector_1; pfam04518 331636000060 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 331636000061 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 331636000062 Walker A/P-loop; other site 331636000063 ATP binding site [chemical binding]; other site 331636000064 Q-loop/lid; other site 331636000065 ABC transporter signature motif; other site 331636000066 Walker B; other site 331636000067 D-loop; other site 331636000068 H-loop/switch region; other site 331636000069 Protein of unknown function (DUF1137); Region: DUF1137; pfam06587 331636000070 NeuB family; Region: NeuB; cl00496 331636000071 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 331636000072 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 331636000073 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 331636000074 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 331636000075 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 331636000076 RNA binding surface [nucleotide binding]; other site 331636000077 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 331636000078 active site 331636000079 DNA Topoisomerase IV; Region: TOP4c; smart00434 331636000080 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 331636000081 CAP-like domain; other site 331636000082 active site 331636000083 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 331636000084 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 331636000085 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 331636000086 ATP binding site [chemical binding]; other site 331636000087 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 331636000088 active site 331636000089 putative metal-binding site [ion binding]; other site 331636000090 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 331636000091 glutamyl-tRNA reductase; Validated; Region: hemA; PRK00676 331636000092 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636000093 NAD(P) binding pocket [chemical binding]; other site 331636000094 Tir chaperone protein (CesT) family; Region: CesT; cl08444 331636000095 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 331636000096 phosphopeptide binding site; other site 331636000097 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14949 331636000098 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 331636000099 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 331636000100 phosphopeptide binding site; other site 331636000101 BON domain; Region: BON; cl02771 331636000102 type III secretion system ATPase; Provisional; Region: PRK06315 331636000103 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 331636000104 Walker A motif/ATP binding site; other site 331636000105 Walker B motif; other site 331636000106 type III secretion system protein; Validated; Region: PRK05933 331636000107 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 331636000108 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 331636000109 Catalytic domain of Protein Kinases; Region: PKc; cd00180 331636000110 active site 331636000111 ATP binding site [chemical binding]; other site 331636000112 substrate binding site [chemical binding]; other site 331636000113 activation loop (A-loop); other site 331636000114 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 331636000115 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 331636000116 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 331636000117 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 331636000118 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 331636000119 Phosphagen (guanidino) kinases; Region: phosphagen_kinases; cl02823 331636000120 ADP binding site [chemical binding]; other site 331636000121 phosphagen binding site; other site 331636000122 substrate specificity loop; other site 331636000123 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 331636000124 UvrB/uvrC motif; Region: UVR; pfam02151 331636000125 ribosome recycling factor; Reviewed; Region: frr; PRK00083 331636000126 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 331636000127 hinge region; other site 331636000128 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 331636000129 putative nucleotide binding site [chemical binding]; other site 331636000130 uridine monophosphate binding site [chemical binding]; other site 331636000131 homohexameric interface [polypeptide binding]; other site 331636000132 elongation factor Ts; Provisional; Region: tsf; PRK09377 331636000133 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 331636000134 Elongation factor TS; Region: EF_TS; pfam00889 331636000135 Elongation factor TS; Region: EF_TS; pfam00889 331636000136 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 331636000137 rRNA interaction site [nucleotide binding]; other site 331636000138 S8 interaction site; other site 331636000139 Chlamydia major outer membrane protein; Region: Chlam_OMP; pfam01308 331636000140 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 331636000141 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 331636000142 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 331636000143 Tetratricopeptide repeat; Region: TPR_12; pfam13424 331636000144 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 331636000145 binding surface 331636000146 TPR motif; other site 331636000147 TPR repeat; Region: TPR_11; pfam13414 331636000148 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 331636000149 binding surface 331636000150 TPR motif; other site 331636000151 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 331636000152 binding surface 331636000153 TPR repeat; Region: TPR_11; pfam13414 331636000154 TPR motif; other site 331636000155 Tetratricopeptide repeat; Region: TPR_16; pfam13432 331636000156 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 331636000157 binding surface 331636000158 TPR motif; other site 331636000159 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 331636000160 putative ABC transporter; Region: ycf24; CHL00085 331636000161 FeS assembly ATPase SufC; Region: sufC; TIGR01978 331636000162 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 331636000163 Walker A/P-loop; other site 331636000164 ATP binding site [chemical binding]; other site 331636000165 Q-loop/lid; other site 331636000166 ABC transporter signature motif; other site 331636000167 Walker B; other site 331636000168 D-loop; other site 331636000169 H-loop/switch region; other site 331636000170 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 331636000171 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 331636000172 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 331636000173 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 331636000174 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 331636000175 catalytic residue [active] 331636000176 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 331636000177 putative active site [active] 331636000178 putative metal binding site [ion binding]; other site 331636000179 ParB-like partition proteins; Region: parB_part; TIGR00180 331636000180 ParB-like nuclease domain; Region: ParBc; cl02129 331636000181 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 331636000182 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 331636000183 Walker A/P-loop; other site 331636000184 ATP binding site [chemical binding]; other site 331636000185 Q-loop/lid; other site 331636000186 ABC transporter signature motif; other site 331636000187 Walker B; other site 331636000188 D-loop; other site 331636000189 H-loop/switch region; other site 331636000190 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 331636000191 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 331636000192 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 331636000193 Walker A/P-loop; other site 331636000194 ATP binding site [chemical binding]; other site 331636000195 Q-loop/lid; other site 331636000196 ABC transporter signature motif; other site 331636000197 Walker B; other site 331636000198 D-loop; other site 331636000199 H-loop/switch region; other site 331636000200 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 331636000201 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 331636000202 Phosphate transporter family; Region: PHO4; cl00396 331636000203 Phosphate transporter family; Region: PHO4; cl00396 331636000204 Phosphoglycerate kinase; Region: PGK; pfam00162 331636000205 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 331636000206 substrate binding site [chemical binding]; other site 331636000207 hinge regions; other site 331636000208 ADP binding site [chemical binding]; other site 331636000209 catalytic site [active] 331636000210 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 331636000211 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 331636000212 S-adenosylmethionine binding site [chemical binding]; other site 331636000213 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 331636000214 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 331636000215 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 331636000216 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 331636000217 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 331636000218 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 331636000219 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 331636000220 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 331636000221 generic binding surface I; other site 331636000222 generic binding surface II; other site 331636000223 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 331636000224 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 331636000225 putative substrate translocation pore; other site 331636000226 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 331636000227 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 331636000228 dimer interface [polypeptide binding]; other site 331636000229 motif 1; other site 331636000230 active site 331636000231 motif 2; other site 331636000232 motif 3; other site 331636000233 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 331636000234 anticodon binding site; other site 331636000235 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 331636000236 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 331636000237 dimer interface [polypeptide binding]; other site 331636000238 anticodon binding site; other site 331636000239 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 331636000240 homodimer interface [polypeptide binding]; other site 331636000241 motif 1; other site 331636000242 active site 331636000243 motif 2; other site 331636000244 GAD domain; Region: GAD; pfam02938 331636000245 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 331636000246 active site 331636000247 motif 3; other site 331636000248 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 331636000249 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 331636000250 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 331636000251 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 331636000252 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 331636000253 catalytic residues [active] 331636000254 Protein of unknown function (DUF2709); Region: DUF2709; pfam10915 331636000255 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 331636000256 DNA polymerase III subunit epsilon; Validated; Region: PRK06310 331636000257 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 331636000258 active site 331636000259 catalytic site [active] 331636000260 substrate binding site [chemical binding]; other site 331636000261 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 331636000262 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 331636000263 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 331636000264 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 331636000265 putative active site [active] 331636000266 catalytic triad [active] 331636000267 putative dimer interface [polypeptide binding]; other site 331636000268 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 331636000269 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 331636000270 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 331636000271 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 331636000272 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 331636000273 active site 331636000274 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 331636000275 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 331636000276 putative active site [active] 331636000277 substrate binding site [chemical binding]; other site 331636000278 putative cosubstrate binding site; other site 331636000279 catalytic site [active] 331636000280 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 331636000281 substrate binding site [chemical binding]; other site 331636000282 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 331636000283 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 331636000284 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 331636000285 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 331636000286 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 331636000287 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 331636000288 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 331636000289 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 331636000290 putative translocon binding site; other site 331636000291 protein-rRNA interface [nucleotide binding]; other site 331636000292 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 331636000293 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 331636000294 G-X-X-G motif; other site 331636000295 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 331636000296 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 331636000297 23S rRNA interface [nucleotide binding]; other site 331636000298 5S rRNA interface [nucleotide binding]; other site 331636000299 putative antibiotic binding site [chemical binding]; other site 331636000300 L25 interface [polypeptide binding]; other site 331636000301 L27 interface [polypeptide binding]; other site 331636000302 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 331636000303 23S rRNA interface [nucleotide binding]; other site 331636000304 putative translocon interaction site; other site 331636000305 signal recognition particle (SRP54) interaction site; other site 331636000306 L23 interface [polypeptide binding]; other site 331636000307 trigger factor interaction site; other site 331636000308 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 331636000309 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 331636000310 Ribosomal protein L24 [Translation, ribosomal structure and biogenesis]; Region: RplX; COG0198 331636000311 KOW motif; Region: KOW; cl00354 331636000312 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 331636000313 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 331636000314 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 331636000315 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 331636000316 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 331636000317 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 331636000318 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 331636000319 5S rRNA interface [nucleotide binding]; other site 331636000320 L27 interface [polypeptide binding]; other site 331636000321 23S rRNA interface [nucleotide binding]; other site 331636000322 L5 interface [polypeptide binding]; other site 331636000323 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 331636000324 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 331636000325 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 331636000326 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 331636000327 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 331636000328 SecY translocase; Region: SecY; pfam00344 331636000329 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 331636000330 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 331636000331 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 331636000332 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 331636000333 alphaNTD - beta interaction site [polypeptide binding]; other site 331636000334 alphaNTD homodimer interface [polypeptide binding]; other site 331636000335 alphaNTD - beta' interaction site [polypeptide binding]; other site 331636000336 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 331636000337 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 331636000338 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636000339 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 331636000340 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 331636000341 Exonuclease VII, large subunit; Region: Exonuc_VII_L; pfam02601 331636000342 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 331636000343 active site 331636000344 putative DNA-binding cleft [nucleotide binding]; other site 331636000345 dimer interface [polypeptide binding]; other site 331636000346 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 331636000347 RuvA N terminal domain; Region: RuvA_N; pfam01330 331636000348 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 331636000349 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 331636000350 active site 331636000351 multimer interface [polypeptide binding]; other site 331636000352 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 331636000353 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 331636000354 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 331636000355 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636000356 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636000357 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 331636000358 replicative DNA helicase; Provisional; Region: PRK06321 331636000359 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 331636000360 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 331636000361 Walker A motif; other site 331636000362 ATP binding site [chemical binding]; other site 331636000363 Walker B motif; other site 331636000364 DNA binding loops [nucleotide binding] 331636000365 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 331636000366 TLC ATP/ADP transporter; Region: TLC; pfam03219 331636000367 ATP/ADP translocase [Energy production and conversion]; Region: COG3202; cl03940 331636000368 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 331636000369 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 331636000370 tandem repeat interface [polypeptide binding]; other site 331636000371 oligomer interface [polypeptide binding]; other site 331636000372 active site residues [active] 331636000373 DNA polymerase I; Provisional; Region: PRK05755 331636000374 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 331636000375 active site 331636000376 metal binding site 1 [ion binding]; metal-binding site 331636000377 putative 5' ssDNA interaction site; other site 331636000378 metal binding site 3; metal-binding site 331636000379 metal binding site 2 [ion binding]; metal-binding site 331636000380 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 331636000381 putative DNA binding site [nucleotide binding]; other site 331636000382 putative metal binding site [ion binding]; other site 331636000383 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 331636000384 active site 331636000385 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 331636000386 active site 331636000387 DNA binding site [nucleotide binding] 331636000388 catalytic site [active] 331636000389 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 331636000390 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 331636000391 CoA-binding site [chemical binding]; other site 331636000392 ATP-binding [chemical binding]; other site 331636000393 transcription termination factor Rho; Provisional; Region: rho; PRK09376 331636000394 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 331636000395 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 331636000396 RNA binding site [nucleotide binding]; other site 331636000397 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 331636000398 multimer interface [polypeptide binding]; other site 331636000399 Walker A motif; other site 331636000400 ATP binding site [chemical binding]; other site 331636000401 Walker B motif; other site 331636000402 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 331636000403 active site 331636000404 glucose-1-phosphate adenylyltransferase; Region: glgC; TIGR02091 331636000405 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 331636000406 ligand binding site; other site 331636000407 oligomer interface; other site 331636000408 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 331636000409 dimer interface [polypeptide binding]; other site 331636000410 N-terminal domain interface [polypeptide binding]; other site 331636000411 sulfate 1 binding site; other site 331636000412 Deinococcus radiodurans DR1119 and related proteins, metallophosphatase domain; Region: MPP_DR1119; cd07393 331636000413 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 331636000414 putative active site [active] 331636000415 putative metal binding site [ion binding]; other site 331636000416 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 331636000417 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 331636000418 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 331636000419 substrate binding pocket [chemical binding]; other site 331636000420 membrane-bound complex binding site; other site 331636000421 hinge residues; other site 331636000422 ferrochelatase; Reviewed; Region: hemH; PRK00035 331636000423 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 331636000424 C-terminal domain interface [polypeptide binding]; other site 331636000425 active site 331636000426 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 331636000427 active site 331636000428 N-terminal domain interface [polypeptide binding]; other site 331636000429 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 331636000430 TPR motif; other site 331636000431 binding surface 331636000432 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 331636000433 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 331636000434 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 331636000435 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 331636000436 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 331636000437 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 331636000438 dimer interface [polypeptide binding]; other site 331636000439 conserved gate region; other site 331636000440 putative PBP binding loops; other site 331636000441 ABC-ATPase subunit interface; other site 331636000442 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 331636000443 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 331636000444 DNA binding site [nucleotide binding] 331636000445 active site 331636000446 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 331636000447 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 331636000448 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 331636000449 putative tRNA-binding site [nucleotide binding]; other site 331636000450 B3/4 domain; Region: B3_4; cl11458 331636000451 tRNA synthetase B5 domain; Region: B5; cl08394 331636000452 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 331636000453 dimer interface [polypeptide binding]; other site 331636000454 motif 1; other site 331636000455 motif 3; other site 331636000456 motif 2; other site 331636000457 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 331636000458 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 331636000459 Uncharacterized ACR, YagE family COG1723; Region: DUF155; cl00751 331636000460 Recombination protein O N terminal; Region: RecO_N; cl15812 331636000461 DNA repair protein RecO; Region: reco; TIGR00613 331636000462 Recombination protein O C terminal; Region: RecO_C; pfam02565 331636000463 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 331636000464 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 331636000465 Response regulator receiver domain; Region: Response_reg; pfam00072 331636000466 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 331636000467 active site 331636000468 phosphorylation site [posttranslational modification] 331636000469 intermolecular recognition site; other site 331636000470 dimerization interface [polypeptide binding]; other site 331636000471 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 331636000472 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 331636000473 Walker A motif; other site 331636000474 ATP binding site [chemical binding]; other site 331636000475 Walker B motif; other site 331636000476 arginine finger; other site 331636000477 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 331636000478 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 331636000479 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 331636000480 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 331636000481 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 331636000482 dimer interface [polypeptide binding]; other site 331636000483 phosphorylation site [posttranslational modification] 331636000484 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 331636000485 ATP binding site [chemical binding]; other site 331636000486 Mg2+ binding site [ion binding]; other site 331636000487 G-X-G motif; other site 331636000488 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 331636000489 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 331636000490 dimerization interface 3.5A [polypeptide binding]; other site 331636000491 active site 331636000492 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 331636000493 substrate binding site; other site 331636000494 dimer interface; other site 331636000495 Predicted phosphohydrolases [General function prediction only]; Region: COG1408 331636000496 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 331636000497 putative active site [active] 331636000498 putative metal binding site [ion binding]; other site 331636000499 SWIB/MDM2 domain; Region: SWIB; cl02489 331636000500 RF-1 domain; Region: RF-1; cl02875 331636000501 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 331636000502 RF-1 domain; Region: RF-1; cl02875 331636000503 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 331636000504 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 331636000505 SprT-like family; Region: SprT-like; pfam10263 331636000506 Transcriptional regulator; Region: Transcrip_reg; cl00361 331636000507 Domain of Unknown Function (DUF1547); Region: DUF1547; pfam07577 331636000508 Domain of Unknown Function (DUF1547); Region: DUF1547; pfam07577 331636000509 Domain of Unknown Function (DUF1547); Region: DUF1547; pfam07577 331636000510 I/LWEQ domain; Region: ILWEQ; smart00307 331636000511 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 331636000512 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 331636000513 hinge; other site 331636000514 active site 331636000515 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 331636000516 arginine-tRNA ligase; Region: PLN02286 331636000517 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 331636000518 active site 331636000519 HIGH motif; other site 331636000520 KMSK motif region; other site 331636000521 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 331636000522 tRNA binding surface [nucleotide binding]; other site 331636000523 anticodon binding site; other site 331636000524 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 331636000525 putative acyl-acceptor binding pocket; other site 331636000526 cytidylate kinase; Provisional; Region: cmk; PRK00023 331636000527 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 331636000528 CMP-binding site; other site 331636000529 The sites determining sugar specificity; other site 331636000530 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 331636000531 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 331636000532 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 331636000533 catalytic residue [active] 331636000534 putative FPP diphosphate binding site; other site 331636000535 putative FPP binding hydrophobic cleft; other site 331636000536 dimer interface [polypeptide binding]; other site 331636000537 putative IPP diphosphate binding site; other site 331636000538 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK12911 331636000539 Protein export membrane protein; Region: SecD_SecF; cl14618 331636000540 Protein export membrane protein; Region: SecD_SecF; cl14618 331636000541 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 331636000542 DHH family; Region: DHH; pfam01368 331636000543 DHHA1 domain; Region: DHHA1; pfam02272 331636000544 Chlamydia CHLPS protein (DUF818); Region: DUF818; pfam05677 331636000545 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 331636000546 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 331636000547 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 331636000548 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 331636000549 HIGH motif; other site 331636000550 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 331636000551 active site 331636000552 KMSKS motif; other site 331636000553 Chlamydia cysteine-rich outer membrane protein 3; Region: Chlam_OMP3; pfam03503 331636000554 Chlamydia cysteine-rich outer membrane protein 6; Region: Chlam_OMP6; pfam03504 331636000555 Fibronectin type III-like domain; Region: Fn3-like; cl15273 331636000556 Fibronectin type III-like domain; Region: Fn3-like; cl15273 331636000557 Chlamydia 15 kDa cysteine-rich outer membrane protein (CRPA); Region: CRPA; pfam05745 331636000558 Opioid growth factor receptor (OGFr) conserved region; Region: OGFr_N; pfam04664 331636000559 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 331636000560 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 331636000561 protein binding site [polypeptide binding]; other site 331636000562 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 331636000563 Catalytic dyad [active] 331636000564 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 331636000565 ATP binding site [chemical binding]; other site 331636000566 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 331636000567 S17 interaction site [polypeptide binding]; other site 331636000568 S8 interaction site; other site 331636000569 16S rRNA interaction site [nucleotide binding]; other site 331636000570 streptomycin interaction site [chemical binding]; other site 331636000571 23S rRNA interaction site [nucleotide binding]; other site 331636000572 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 331636000573 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 331636000574 elongation factor G; Reviewed; Region: PRK12739 331636000575 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 331636000576 G1 box; other site 331636000577 putative GEF interaction site [polypeptide binding]; other site 331636000578 GTP/Mg2+ binding site [chemical binding]; other site 331636000579 Switch I region; other site 331636000580 G2 box; other site 331636000581 G3 box; other site 331636000582 Switch II region; other site 331636000583 G4 box; other site 331636000584 G5 box; other site 331636000585 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 331636000586 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 331636000587 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 331636000588 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 331636000589 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 331636000590 FAD binding pocket [chemical binding]; other site 331636000591 conserved FAD binding motif [chemical binding]; other site 331636000592 phosphate binding motif [ion binding]; other site 331636000593 beta-alpha-beta structure motif; other site 331636000594 NAD binding pocket [chemical binding]; other site 331636000595 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 331636000596 homotrimer interaction site [polypeptide binding]; other site 331636000597 zinc binding site [ion binding]; other site 331636000598 CDP-binding sites; other site 331636000599 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 331636000600 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 331636000601 GTPase CgtA; Reviewed; Region: obgE; PRK12299 331636000602 GTP1/OBG; Region: GTP1_OBG; pfam01018 331636000603 Obg GTPase; Region: Obg; cd01898 331636000604 G1 box; other site 331636000605 GTP/Mg2+ binding site [chemical binding]; other site 331636000606 Switch I region; other site 331636000607 G2 box; other site 331636000608 G3 box; other site 331636000609 Switch II region; other site 331636000610 G4 box; other site 331636000611 G5 box; other site 331636000612 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 331636000613 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 331636000614 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 331636000615 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 331636000616 putative metal binding residues [ion binding]; other site 331636000617 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 331636000618 thiamine phosphate binding site [chemical binding]; other site 331636000619 active site 331636000620 pyrophosphate binding site [ion binding]; other site 331636000621 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 331636000622 substrate binding site [chemical binding]; other site 331636000623 multimerization interface [polypeptide binding]; other site 331636000624 ATP binding site [chemical binding]; other site 331636000625 adhesin; Provisional; Region: PRK09752 331636000626 adhesin; Provisional; Region: PRK09752 331636000627 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636000628 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 331636000629 adhesin; Provisional; Region: PRK09752 331636000630 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331636000631 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636000632 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 331636000633 YtxH-like protein; Region: YtxH; cl02079 331636000634 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 331636000635 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 331636000636 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 331636000637 lipoprotein signal peptidase; Provisional; Region: PRK14787 331636000638 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 331636000639 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 331636000640 ATP cone domain; Region: ATP-cone; pfam03477 331636000641 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 331636000642 Lumazine binding domain; Region: Lum_binding; pfam00677 331636000643 Lumazine binding domain; Region: Lum_binding; pfam00677 331636000644 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 331636000645 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 331636000646 S-adenosylmethionine binding site [chemical binding]; other site 331636000647 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 331636000648 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 331636000649 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 331636000650 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 331636000651 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 331636000652 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 331636000653 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 331636000654 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 331636000655 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 331636000656 E3 interaction surface; other site 331636000657 lipoyl attachment site [posttranslational modification]; other site 331636000658 e3 binding domain; Region: E3_binding; pfam02817 331636000659 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 331636000660 Predicted sugar phosphate isomerase involved in capsule formation [Cell envelope biogenesis, outer membrane]; Region: GutQ; COG0794 331636000661 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 331636000662 putative active site [active] 331636000663 FOG: CBS domain [General function prediction only]; Region: COG0517 331636000664 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 331636000665 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 331636000666 Putative zinc ribbon domain; Region: DUF164; pfam02591 331636000667 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 331636000668 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 331636000669 active site 331636000670 serine hydroxymethyltransferase; Provisional; Region: PRK13580 331636000671 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 331636000672 dimer interface [polypeptide binding]; other site 331636000673 active site 331636000674 glycine-pyridoxal phosphate binding site [chemical binding]; other site 331636000675 folate binding site [chemical binding]; other site 331636000676 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 331636000677 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 331636000678 oligomer interface [polypeptide binding]; other site 331636000679 active site residues [active] 331636000680 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 331636000681 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 331636000682 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 331636000683 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 331636000684 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 331636000685 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 331636000686 S-adenosylmethionine binding site [chemical binding]; other site 331636000687 NMT1-like family; Region: NMT1_2; cl15260 331636000688 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 331636000689 hypothetical protein; Provisional; Region: PRK05926 331636000690 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 331636000691 FeS/SAM binding site; other site 331636000692 Protein of unknown function (DUF3604); Region: DUF3604; pfam12228 331636000693 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 331636000694 anti sigma factor interaction site; other site 331636000695 regulatory phosphorylation site [posttranslational modification]; other site 331636000696 FOG: CBS domain [General function prediction only]; Region: COG0517 331636000697 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 331636000698 Transporter associated domain; Region: CorC_HlyC; cl08393 331636000699 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 331636000700 Chlam_Verruc_Plancto small basic protein; Region: Chlam_Ver_rRNA; TIGR04137 331636000701 Protein of unknown function (DUF502); Region: DUF502; cl01107 331636000702 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 331636000703 active site 331636000704 DNA binding site [nucleotide binding] 331636000705 Exoribonuclease R [Transcription]; Region: VacB; COG0557 331636000706 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 331636000707 RNB domain; Region: RNB; pfam00773 331636000708 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 331636000709 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 331636000710 heat shock protein GrpE; Provisional; Region: PRK14141 331636000711 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 331636000712 dimer interface [polypeptide binding]; other site 331636000713 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 331636000714 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 331636000715 prolyl-tRNA synthetase; Provisional; Region: PRK09194 331636000716 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 331636000717 dimer interface [polypeptide binding]; other site 331636000718 motif 1; other site 331636000719 active site 331636000720 motif 2; other site 331636000721 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 331636000722 putative deacylase active site [active] 331636000723 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 331636000724 active site 331636000725 motif 3; other site 331636000726 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 331636000727 anticodon binding site; other site 331636000728 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 331636000729 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 331636000730 LL-diaminopimelate aminotransferase; Region: DAPAT_plant; TIGR03542 331636000731 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 331636000732 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331636000733 homodimer interface [polypeptide binding]; other site 331636000734 catalytic residue [active] 331636000735 Protein of unknown function (DUF1207); Region: DUF1207; pfam06727 331636000736 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 331636000737 Uncharacterized protein family (UPF0160); Region: UPF0160; cl01749 331636000738 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 331636000739 nucleotide binding site/active site [active] 331636000740 HEAT repeats; Region: HEAT_2; pfam13646 331636000741 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 331636000742 Na binding site [ion binding]; other site 331636000743 NeuB family; Region: NeuB; cl00496 331636000744 OTU-like cysteine protease; Region: OTU; cl14910 331636000745 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 331636000746 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 331636000747 substrate binding pocket [chemical binding]; other site 331636000748 membrane-bound complex binding site; other site 331636000749 hinge residues; other site 331636000750 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 331636000751 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 331636000752 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 331636000753 HflX GTPase family; Region: HflX; cd01878 331636000754 G1 box; other site 331636000755 GTP/Mg2+ binding site [chemical binding]; other site 331636000756 Switch I region; other site 331636000757 G2 box; other site 331636000758 G3 box; other site 331636000759 Switch II region; other site 331636000760 G4 box; other site 331636000761 G5 box; other site 331636000762 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 331636000763 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 331636000764 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 331636000765 FeS/SAM binding site; other site 331636000766 glycogen branching enzyme; Provisional; Region: PRK05402 331636000767 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 331636000768 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 331636000769 active site 331636000770 catalytic site [active] 331636000771 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 331636000772 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331636000773 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636000774 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 331636000775 adhesin; Provisional; Region: PRK09752 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 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 331636000780 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636000781 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 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 Chlamydia polymorphic membrane protein (Chlamydia_PMP) repeat; Region: Chlam_PMP; pfam02415 331636000785 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636000786 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 331636000787 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331636000788 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636000789 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 331636000790 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331636000791 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636000792 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 331636000793 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636000794 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 331636000795 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331636000796 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636000797 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 331636000798 adhesin; Provisional; Region: PRK09752 331636000799 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331636000800 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636000801 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 331636000802 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331636000803 adhesin; Provisional; Region: PRK09752 331636000804 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636000805 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 331636000806 adhesin; Provisional; Region: PRK09752 331636000807 adhesin; Provisional; Region: PRK09752 331636000808 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331636000809 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636000810 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 331636000811 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331636000812 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331636000813 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636000814 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 331636000815 potential frameshift: common BLAST hit: gi|62184915|ref|YP_219700.1| polymorphic outer membrane protein 331636000816 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636000817 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 331636000818 Domain of unknown function (DUF378); Region: DUF378; cl00943 331636000819 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 331636000820 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 331636000821 Amidase; Region: Amidase; cl11426 331636000822 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 331636000823 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 331636000824 GatB domain; Region: GatB_Yqey; cl11497 331636000825 ribonuclease HIII; Provisional; Region: PRK00996 331636000826 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 331636000827 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 331636000828 RNA/DNA hybrid binding site [nucleotide binding]; other site 331636000829 active site 331636000830 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 331636000831 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 331636000832 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 331636000833 potential frameshift: common BLAST hit: gi|89898510|ref|YP_515620.1| outer membrane protein 331636000834 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 331636000835 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 331636000836 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 331636000837 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 331636000838 catalytic residues [active] 331636000839 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 331636000840 active site 331636000841 zinc binding site [ion binding]; other site 331636000842 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 331636000843 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 331636000844 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 331636000845 TPP-binding site; other site 331636000846 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 331636000847 PYR/PP interface [polypeptide binding]; other site 331636000848 dimer interface [polypeptide binding]; other site 331636000849 TPP binding site [chemical binding]; other site 331636000850 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 331636000851 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 331636000852 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 331636000853 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 331636000854 generic binding surface II; other site 331636000855 generic binding surface I; other site 331636000856 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 331636000857 substrate binding site [chemical binding]; other site 331636000858 dimer interface [polypeptide binding]; other site 331636000859 catalytic triad [active] 331636000860 Preprotein translocase SecG subunit; Region: SecG; cl09123 331636000861 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 331636000862 active site 331636000863 catalytic residues [active] 331636000864 metal binding site [ion binding]; metal-binding site 331636000865 excinuclease ABC subunit C; Provisional; Region: uvrC; PRK14671 331636000866 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 331636000867 Maf-like protein; Region: Maf; pfam02545 331636000868 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 331636000869 active site 331636000870 dimer interface [polypeptide binding]; other site 331636000871 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 331636000872 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 331636000873 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 331636000874 ABC transporter; Region: ABC_tran_2; pfam12848 331636000875 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 331636000876 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 331636000877 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 331636000878 active site 331636000879 Int/Topo IB signature motif; other site 331636000880 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 331636000881 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 331636000882 Found in ATP-dependent protease La (LON); Region: LON; smart00464 331636000883 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 331636000884 Walker A motif; other site 331636000885 ATP binding site [chemical binding]; other site 331636000886 Walker B motif; other site 331636000887 arginine finger; other site 331636000888 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 331636000889 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 331636000890 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 331636000891 chaperone protein DnaJ; Provisional; Region: PRK14284 331636000892 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 331636000893 HSP70 interaction site [polypeptide binding]; other site 331636000894 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 331636000895 Zn binding sites [ion binding]; other site 331636000896 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 331636000897 dimer interface [polypeptide binding]; other site 331636000898 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 331636000899 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 331636000900 tetramer interface [polypeptide binding]; other site 331636000901 TPP-binding site [chemical binding]; other site 331636000902 heterodimer interface [polypeptide binding]; other site 331636000903 phosphorylation loop region [posttranslational modification] 331636000904 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 331636000905 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 331636000906 alpha subunit interface [polypeptide binding]; other site 331636000907 TPP binding site [chemical binding]; other site 331636000908 heterodimer interface [polypeptide binding]; other site 331636000909 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 331636000910 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 331636000911 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 331636000912 ADP-ribose binding site [chemical binding]; other site 331636000913 Competence protein; Region: Competence; cl00471 331636000914 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 331636000915 dimerization domain swap beta strand [polypeptide binding]; other site 331636000916 regulatory protein interface [polypeptide binding]; other site 331636000917 active site 331636000918 regulatory phosphorylation site [posttranslational modification]; other site 331636000919 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 331636000920 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 331636000921 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 331636000922 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 331636000923 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 331636000924 DNA polymerase III subunits gamma and tau; Validated; Region: PRK06305 331636000925 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 331636000926 Walker A motif; other site 331636000927 ATP binding site [chemical binding]; other site 331636000928 Walker B motif; other site 331636000929 arginine finger; other site 331636000930 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 331636000931 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 331636000932 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 331636000933 Zn2+ binding site [ion binding]; other site 331636000934 Mg2+ binding site [ion binding]; other site 331636000935 porphobilinogen deaminase; Provisional; Region: PRK01066 331636000936 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 331636000937 domain interfaces; other site 331636000938 active site 331636000939 DNA repair protein RadA; Provisional; Region: PRK11823 331636000940 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 331636000941 Walker A motif/ATP binding site; other site 331636000942 ATP binding site [chemical binding]; other site 331636000943 Walker B motif; other site 331636000944 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 331636000945 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 331636000946 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 331636000947 dimerization interface [polypeptide binding]; other site 331636000948 active site 331636000949 metal binding site [ion binding]; metal-binding site 331636000950 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 331636000951 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 331636000952 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 331636000953 active site 331636000954 substrate binding site [chemical binding]; other site 331636000955 metal binding site [ion binding]; metal-binding site 331636000956 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 331636000957 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 331636000958 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 331636000959 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 331636000960 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 331636000961 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 331636000962 trimer interface [polypeptide binding]; other site 331636000963 active site 331636000964 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 331636000965 active site 331636000966 phosphorylation site [posttranslational modification] 331636000967 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 331636000968 DNA binding residues [nucleotide binding] 331636000969 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 331636000970 active site 331636000971 phosphorylation site [posttranslational modification] 331636000972 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 331636000973 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 331636000974 Ligand Binding Site [chemical binding]; other site 331636000975 Clp protease ATP binding subunit; Region: clpC; CHL00095 331636000976 Clp amino terminal domain; Region: Clp_N; pfam02861 331636000977 Clp amino terminal domain; Region: Clp_N; pfam02861 331636000978 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 331636000979 Walker A motif; other site 331636000980 ATP binding site [chemical binding]; other site 331636000981 Walker B motif; other site 331636000982 arginine finger; other site 331636000983 UvrB/uvrC motif; Region: UVR; pfam02151 331636000984 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 331636000985 Walker A motif; other site 331636000986 ATP binding site [chemical binding]; other site 331636000987 Walker B motif; other site 331636000988 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 331636000989 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 331636000990 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 331636000991 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 331636000992 putative active site [active] 331636000993 catalytic site [active] 331636000994 Chlamydial GcvH-like protein upstream region protein; Region: near_not_gcvH; TIGR03076 331636000995 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 331636000996 lipoyl attachment site [posttranslational modification]; other site 331636000997 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 331636000998 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 331636000999 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 331636001000 FMN-binding domain; Region: FMN_bind; cl01081 331636001001 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 331636001002 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 331636001003 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 331636001004 DnaA N-terminal domain; Region: DnaA_N; pfam11638 331636001005 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 331636001006 Walker A motif; other site 331636001007 ATP binding site [chemical binding]; other site 331636001008 Walker B motif; other site 331636001009 arginine finger; other site 331636001010 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 331636001011 DnaA box-binding interface [nucleotide binding]; other site 331636001012 TPR repeat; Region: TPR_11; pfam13414 331636001013 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 331636001014 binding surface 331636001015 TPR motif; other site 331636001016 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 331636001017 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 331636001018 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 331636001019 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 331636001020 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 331636001021 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 331636001022 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 331636001023 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 331636001024 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 331636001025 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 331636001026 active site 331636001027 metal binding site [ion binding]; metal-binding site 331636001028 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 331636001029 IHF - DNA interface [nucleotide binding]; other site 331636001030 IHF dimer interface [polypeptide binding]; other site 331636001031 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 331636001032 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 331636001033 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 331636001034 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001035 Walker A/P-loop; other site 331636001036 ATP binding site [chemical binding]; other site 331636001037 Q-loop/lid; other site 331636001038 ABC transporter signature motif; other site 331636001039 Walker B; other site 331636001040 D-loop; other site 331636001041 H-loop/switch region; other site 331636001042 nucleosidase; Provisional; Region: PRK05634 331636001043 NMT1-like family; Region: NMT1_2; cl15260 331636001044 DNA polymerase III subunit epsilon; Validated; Region: PRK06309 331636001045 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 331636001046 active site 331636001047 catalytic site [active] 331636001048 substrate binding site [chemical binding]; other site 331636001049 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 331636001050 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 331636001051 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 331636001052 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 331636001053 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636001054 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 331636001055 NAD(P) binding site [chemical binding]; other site 331636001056 active site 331636001057 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 331636001058 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 331636001059 RNA binding surface [nucleotide binding]; other site 331636001060 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 331636001061 active site 331636001062 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 331636001063 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 331636001064 minor groove reading motif; other site 331636001065 helix-hairpin-helix signature motif; other site 331636001066 substrate binding pocket [chemical binding]; other site 331636001067 active site 331636001068 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 331636001069 DNA binding and oxoG recognition site [nucleotide binding] 331636001070 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 331636001071 homodimer interface [polypeptide binding]; other site 331636001072 metal binding site [ion binding]; metal-binding site 331636001073 CAAX protease self-immunity; Region: Abi; cl00558 331636001074 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 331636001075 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 331636001076 Protein phosphatase 2C; Region: PP2C; pfam00481 331636001077 active site 331636001078 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 331636001079 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 331636001080 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 331636001081 catalytic residue [active] 331636001082 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 331636001083 Domain of unknown function DUF21; Region: DUF21; pfam01595 331636001084 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 331636001085 Transporter associated domain; Region: CorC_HlyC; cl08393 331636001086 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 331636001087 Domain of unknown function DUF21; Region: DUF21; pfam01595 331636001088 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 331636001089 Transporter associated domain; Region: CorC_HlyC; cl08393 331636001090 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 331636001091 trimer interface [polypeptide binding]; other site 331636001092 active site 331636001093 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 331636001094 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 331636001095 Walker A motif; other site 331636001096 ATP binding site [chemical binding]; other site 331636001097 Walker B motif; other site 331636001098 arginine finger; other site 331636001099 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 331636001100 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 331636001101 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 331636001102 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 331636001103 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 331636001104 active site 331636001105 catalytic site [active] 331636001106 Tir chaperone protein (CesT) family; Region: CesT; cl08444 331636001107 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 331636001108 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 331636001109 dimer interface [polypeptide binding]; other site 331636001110 ssDNA binding site [nucleotide binding]; other site 331636001111 tetramer (dimer of dimers) interface [polypeptide binding]; other site 331636001112 multifunctional aminopeptidase A; Provisional; Region: PRK00913 331636001113 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 331636001114 interface (dimer of trimers) [polypeptide binding]; other site 331636001115 Substrate-binding/catalytic site; other site 331636001116 Zn-binding sites [ion binding]; other site 331636001117 Histone H1-like nucleoprotein HC2; Region: HC2; pfam07382 331636001118 hypothetical protein; Provisional; Region: PRK05907 331636001119 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 331636001120 coproporphyrinogen III oxidase; Provisional; Region: PRK06294 331636001121 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 331636001122 FeS/SAM binding site; other site 331636001123 HemN C-terminal domain; Region: HemN_C; pfam06969 331636001124 Protein of unknown function (DUF342); Region: DUF342; pfam03961 331636001125 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 331636001126 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 331636001127 TPP-binding site [chemical binding]; other site 331636001128 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 331636001129 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 331636001130 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 331636001131 E3 interaction surface; other site 331636001132 lipoyl attachment site [posttranslational modification]; other site 331636001133 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 331636001134 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 331636001135 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 331636001136 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Provisional; Region: PRK02048 331636001137 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 331636001138 ADP-ribose binding site [chemical binding]; other site 331636001139 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 331636001140 ADP-ribose binding site [chemical binding]; other site 331636001141 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 331636001142 catalytic loop [active] 331636001143 iron binding site [ion binding]; other site 331636001144 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 331636001145 RNA polymerase sigma factor sigma-28; Reviewed; Region: PRK05911 331636001146 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 331636001147 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 331636001148 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 331636001149 DNA binding residues [nucleotide binding] 331636001150 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 331636001151 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 331636001152 active site 331636001153 HIGH motif; other site 331636001154 dimer interface [polypeptide binding]; other site 331636001155 KMSKS motif; other site 331636001156 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 331636001157 6-phosphogluconate dehydrogenase (decarboxylating); Region: gnd; TIGR00873 331636001158 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636001159 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 331636001160 GTP-binding protein LepA; Provisional; Region: PRK05433 331636001161 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 331636001162 G1 box; other site 331636001163 putative GEF interaction site [polypeptide binding]; other site 331636001164 GTP/Mg2+ binding site [chemical binding]; other site 331636001165 Switch I region; other site 331636001166 G2 box; other site 331636001167 G3 box; other site 331636001168 Switch II region; other site 331636001169 G4 box; other site 331636001170 G5 box; other site 331636001171 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 331636001172 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 331636001173 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 331636001174 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 331636001175 TLC ATP/ADP transporter; Region: TLC; pfam03219 331636001176 ATP/ADP translocase [Energy production and conversion]; Region: COG3202; cl03940 331636001177 putative arabinose transporter; Provisional; Region: PRK03545 331636001178 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 331636001179 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 331636001180 intersubunit interface [polypeptide binding]; other site 331636001181 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 331636001182 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 331636001183 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 331636001184 ABC-ATPase subunit interface; other site 331636001185 dimer interface [polypeptide binding]; other site 331636001186 putative PBP binding regions; other site 331636001187 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 331636001188 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 331636001189 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 331636001190 ABC-ATPase subunit interface; other site 331636001191 dimer interface [polypeptide binding]; other site 331636001192 putative PBP binding regions; other site 331636001193 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 331636001194 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 331636001195 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 331636001196 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 331636001197 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 331636001198 RIP metalloprotease RseP; Region: TIGR00054 331636001199 RIP metalloprotease RseP; Region: TIGR00054 331636001200 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 331636001201 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 331636001202 putative substrate binding region [chemical binding]; other site 331636001203 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 331636001204 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 331636001205 recombination protein F; Reviewed; Region: recF; PRK00064 331636001206 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001207 Walker A/P-loop; other site 331636001208 ATP binding site [chemical binding]; other site 331636001209 Q-loop/lid; other site 331636001210 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001211 ABC transporter signature motif; other site 331636001212 Walker B; other site 331636001213 D-loop; other site 331636001214 H-loop/switch region; other site 331636001215 DNA polymerase III subunit beta; Validated; Region: PRK05643 331636001216 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 331636001217 putative DNA binding surface [nucleotide binding]; other site 331636001218 dimer interface [polypeptide binding]; other site 331636001219 beta-clamp/clamp loader binding surface; other site 331636001220 beta-clamp/translesion DNA polymerase binding surface; other site 331636001221 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 331636001222 SmpB-tmRNA interface; other site 331636001223 ApbE family; Region: ApbE; cl00643 331636001224 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14181 331636001225 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 331636001226 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 331636001227 homodimer interface [polypeptide binding]; other site 331636001228 NADP binding site [chemical binding]; other site 331636001229 substrate binding site [chemical binding]; other site 331636001230 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 331636001231 PLD-like domain; Region: PLDc_2; pfam13091 331636001232 putative active site [active] 331636001233 catalytic site [active] 331636001234 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 331636001235 PLD-like domain; Region: PLDc_2; pfam13091 331636001236 putative active site [active] 331636001237 catalytic site [active] 331636001238 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 331636001239 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 331636001240 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 331636001241 Tir chaperone protein (CesT) family; Region: CesT; cl08444 331636001242 HrpJ-like domain; Region: HrpJ; cl15454 331636001243 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 331636001244 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 331636001245 type III secretion system protein; Validated; Region: PRK06298 331636001246 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 331636001247 GTP-binding protein YchF; Reviewed; Region: PRK09601 331636001248 YchF GTPase; Region: YchF; cd01900 331636001249 G1 box; other site 331636001250 GTP/Mg2+ binding site [chemical binding]; other site 331636001251 Switch I region; other site 331636001252 G2 box; other site 331636001253 Switch II region; other site 331636001254 G3 box; other site 331636001255 G4 box; other site 331636001256 G5 box; other site 331636001257 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 331636001258 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 331636001259 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 331636001260 active site 331636001261 Riboflavin kinase; Region: Flavokinase; cl03312 331636001262 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 331636001263 RNA binding site [nucleotide binding]; other site 331636001264 active site 331636001265 Ribosome-binding factor A; Region: RBFA; cl00542 331636001266 translation initiation factor IF-2; Region: IF-2; TIGR00487 331636001267 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 331636001268 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 331636001269 G1 box; other site 331636001270 putative GEF interaction site [polypeptide binding]; other site 331636001271 GTP/Mg2+ binding site [chemical binding]; other site 331636001272 Switch I region; other site 331636001273 G2 box; other site 331636001274 G3 box; other site 331636001275 Switch II region; other site 331636001276 G4 box; other site 331636001277 G5 box; other site 331636001278 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 331636001279 Translation-initiation factor 2; Region: IF-2; pfam11987 331636001280 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 331636001281 transcription termination factor NusA; Region: NusA; TIGR01953 331636001282 NusA N-terminal domain; Region: NusA_N; pfam08529 331636001283 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 331636001284 RNA binding site [nucleotide binding]; other site 331636001285 homodimer interface [polypeptide binding]; other site 331636001286 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 331636001287 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 331636001288 G-X-X-G motif; other site 331636001289 DNA repair protein RAD51 homolog; Provisional; Region: PLN03186 331636001290 ribosomal protein S1; Region: rpsA; TIGR00717 331636001291 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 331636001292 RNA binding site [nucleotide binding]; other site 331636001293 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 331636001294 RNA binding site [nucleotide binding]; other site 331636001295 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 331636001296 RNA binding site [nucleotide binding]; other site 331636001297 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 331636001298 RNA binding site [nucleotide binding]; other site 331636001299 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 331636001300 RNA binding site [nucleotide binding]; other site 331636001301 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 331636001302 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 331636001303 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 331636001304 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 331636001305 putative inner membrane protein translocase component YidC; Provisional; Region: PRK01001 331636001306 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 331636001307 chromosomal replication initiation protein; Provisional; Region: PRK12422 331636001308 DnaA N-terminal domain; Region: DnaA_N; pfam11638 331636001309 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 331636001310 Walker A motif; other site 331636001311 ATP binding site [chemical binding]; other site 331636001312 Walker B motif; other site 331636001313 arginine finger; other site 331636001314 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 331636001315 DnaA box-binding interface [nucleotide binding]; other site 331636001316 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 331636001317 homodimer interface [polypeptide binding]; other site 331636001318 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 331636001319 active site pocket [active] 331636001320 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 331636001321 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 331636001322 E3 interaction surface; other site 331636001323 lipoyl attachment site [posttranslational modification]; other site 331636001324 e3 binding domain; Region: E3_binding; pfam02817 331636001325 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 331636001326 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 331636001327 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 331636001328 alpha subunit interface [polypeptide binding]; other site 331636001329 TPP binding site [chemical binding]; other site 331636001330 heterodimer interface [polypeptide binding]; other site 331636001331 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 331636001332 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 331636001333 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 331636001334 tetramer interface [polypeptide binding]; other site 331636001335 TPP-binding site [chemical binding]; other site 331636001336 heterodimer interface [polypeptide binding]; other site 331636001337 phosphorylation loop region [posttranslational modification] 331636001338 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 331636001339 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 331636001340 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 331636001341 trimer interface [polypeptide binding]; other site 331636001342 active site 331636001343 UDP-GlcNAc binding site [chemical binding]; other site 331636001344 lipid binding site [chemical binding]; lipid-binding site 331636001345 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 331636001346 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 331636001347 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 331636001348 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 331636001349 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 331636001350 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 331636001351 Surface antigen; Region: Bac_surface_Ag; cl03097 331636001352 recombination protein RecR; Reviewed; Region: recR; PRK00076 331636001353 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 331636001354 putative active site [active] 331636001355 putative metal-binding site [ion binding]; other site 331636001356 tetramer interface [polypeptide binding]; other site 331636001357 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 331636001358 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 331636001359 dimer interface [polypeptide binding]; other site 331636001360 active site 331636001361 CoA binding pocket [chemical binding]; other site 331636001362 Acyl transferase domain; Region: Acyl_transf_1; cl08282 331636001363 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 331636001364 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 331636001365 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 331636001366 NAD(P) binding site [chemical binding]; other site 331636001367 homotetramer interface [polypeptide binding]; other site 331636001368 homodimer interface [polypeptide binding]; other site 331636001369 active site 331636001370 Phosphopantetheine attachment site; Region: PP-binding; cl09936 331636001371 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 331636001372 ligand binding site [chemical binding]; other site 331636001373 flexible hinge region; other site 331636001374 ATP/ADP translocase [Energy production and conversion]; Region: COG3202; cl03940 331636001375 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 331636001376 Na binding site [ion binding]; other site 331636001377 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 331636001378 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 331636001379 MgtE intracellular N domain; Region: MgtE_N; cl15244 331636001380 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 331636001381 Divalent cation transporter; Region: MgtE; cl00786 331636001382 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 331636001383 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 331636001384 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 331636001385 putative active site; other site 331636001386 catalytic residue [active] 331636001387 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 331636001388 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001389 Walker A/P-loop; other site 331636001390 ATP binding site [chemical binding]; other site 331636001391 Q-loop/lid; other site 331636001392 ABC transporter signature motif; other site 331636001393 Walker B; other site 331636001394 D-loop; other site 331636001395 H-loop/switch region; other site 331636001396 NIL domain; Region: NIL; cl09633 331636001397 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 331636001398 NMT1-like family; Region: NMT1_2; cl15260 331636001399 Protein of unknown function (DUF721); Region: DUF721; cl02324 331636001400 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 331636001401 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 331636001402 ATP binding site [chemical binding]; other site 331636001403 Mg2+ binding site [ion binding]; other site 331636001404 G-X-G motif; other site 331636001405 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 331636001406 anchoring element; other site 331636001407 dimer interface [polypeptide binding]; other site 331636001408 ATP binding site [chemical binding]; other site 331636001409 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 331636001410 active site 331636001411 putative metal-binding site [ion binding]; other site 331636001412 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 331636001413 DNA gyrase, A subunit; Region: gyrA; TIGR01063 331636001414 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 331636001415 CAP-like domain; other site 331636001416 active site 331636001417 primary dimer interface [polypeptide binding]; other site 331636001418 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 331636001419 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 331636001420 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 331636001421 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 331636001422 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 331636001423 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 331636001424 thymidylate kinase; Validated; Region: tmk; PRK00698 331636001425 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 331636001426 TMP-binding site; other site 331636001427 ATP-binding site [chemical binding]; other site 331636001428 DNA polymerase III subunit delta'; Validated; Region: PRK05917 331636001429 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 331636001430 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 331636001431 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 331636001432 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 331636001433 active site 331636001434 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 331636001435 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 331636001436 HOOK protein; Region: HOOK; pfam05622 331636001437 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 331636001438 UbiA prenyltransferase family; Region: UbiA; cl00337 331636001439 aromatic acid decarboxylase; Validated; Region: PRK05920 331636001440 Flavoprotein; Region: Flavoprotein; cl08021 331636001441 Uncharacterized conserved protein [Function unknown]; Region: COG1284 331636001442 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 331636001443 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 331636001444 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 331636001445 Survival protein SurE; Region: SurE; cl00448 331636001446 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 331636001447 Ligand Binding Site [chemical binding]; other site 331636001448 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 331636001449 SEC-C motif; Region: SEC-C; pfam02810 331636001450 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 331636001451 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 331636001452 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 331636001453 FeS/SAM binding site; other site 331636001454 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 331636001455 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 331636001456 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 331636001457 FtsX-like permease family; Region: FtsX; cl15850 331636001458 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 331636001459 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 331636001460 Walker A/P-loop; other site 331636001461 ATP binding site [chemical binding]; other site 331636001462 Q-loop/lid; other site 331636001463 ABC transporter signature motif; other site 331636001464 Walker B; other site 331636001465 D-loop; other site 331636001466 H-loop/switch region; other site 331636001467 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 331636001468 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 331636001469 23S rRNA interface [nucleotide binding]; other site 331636001470 L3 interface [polypeptide binding]; other site 331636001471 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 331636001472 NlpC/P60 family; Region: NLPC_P60; cl11438 331636001473 adenylate kinase; Reviewed; Region: adk; PRK00279 331636001474 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 331636001475 AMP-binding site [chemical binding]; other site 331636001476 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 331636001477 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 331636001478 putative active site [active] 331636001479 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 331636001480 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 331636001481 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 331636001482 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 331636001483 peptide binding site [polypeptide binding]; other site 331636001484 UGMP family protein; Validated; Region: PRK09604 331636001485 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 331636001486 arginine repressor; Region: argR_whole; TIGR01529 331636001487 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 331636001488 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 331636001489 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 331636001490 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 331636001491 dimer interface [polypeptide binding]; other site 331636001492 conserved gate region; other site 331636001493 putative PBP binding loops; other site 331636001494 ABC-ATPase subunit interface; other site 331636001495 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 331636001496 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001497 Walker A/P-loop; other site 331636001498 ATP binding site [chemical binding]; other site 331636001499 Q-loop/lid; other site 331636001500 ABC transporter signature motif; other site 331636001501 Walker B; other site 331636001502 D-loop; other site 331636001503 H-loop/switch region; other site 331636001504 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 331636001505 Uncharacterized protein conserved in archaea (DUF2250); Region: DUF2250; pfam10007 331636001506 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 331636001507 S-adenosylmethionine binding site [chemical binding]; other site 331636001508 IncA protein; Region: IncA; pfam04156 331636001509 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 331636001510 dimer interface [polypeptide binding]; other site 331636001511 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 331636001512 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 331636001513 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 331636001514 substrate binding site [chemical binding]; other site 331636001515 hexamer interface [polypeptide binding]; other site 331636001516 metal binding site [ion binding]; metal-binding site 331636001517 elongation factor P; Provisional; Region: PRK12426 331636001518 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 331636001519 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 331636001520 RNA binding site [nucleotide binding]; other site 331636001521 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 331636001522 RNA binding site [nucleotide binding]; other site 331636001523 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 331636001524 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 331636001525 carboxyltransferase (CT) interaction site; other site 331636001526 biotinylation site [posttranslational modification]; other site 331636001527 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 331636001528 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 331636001529 ATP-grasp domain; Region: ATP-grasp_4; cl03087 331636001530 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 331636001531 Family of unknown function (DUF648); Region: DUF648; pfam04890 331636001532 Family of unknown function (DUF648); Region: DUF648; pfam04890 331636001533 Family of unknown function (DUF648); Region: DUF648; pfam04890 331636001534 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 331636001535 TcdB toxin N-terminal helical domain; Region: TcdB_N; pfam12918 331636001536 TcdA/TcdB catalytic glycosyltransferase domain; Region: TcdA_TcdB; pfam12919 331636001537 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 331636001538 Yersinia/Haemophilus virulence surface antigen; Region: Peptidase_C58; cl04145 331636001539 Protein of unknown function (DUF3491); Region: DUF3491; pfam11996 331636001540 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 331636001541 MAC/Perforin domain; Region: MACPF; cl02616 331636001542 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 331636001543 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 331636001544 active site 331636001545 GMP synthase; Reviewed; Region: guaA; PRK00074 331636001546 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 331636001547 AMP/PPi binding site [chemical binding]; other site 331636001548 candidate oxyanion hole; other site 331636001549 catalytic triad [active] 331636001550 potential glutamine specificity residues [chemical binding]; other site 331636001551 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 331636001552 ATP Binding subdomain [chemical binding]; other site 331636001553 Ligand Binding sites [chemical binding]; other site 331636001554 Dimerization subdomain; other site 331636001555 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK06843 331636001556 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 331636001557 active site 331636001558 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 331636001559 putative active site pocket [active] 331636001560 dimerization interface [polypeptide binding]; other site 331636001561 putative catalytic residue [active] 331636001562 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 331636001563 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 331636001564 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 331636001565 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 331636001566 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 331636001567 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 331636001568 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001569 Walker A/P-loop; other site 331636001570 ATP binding site [chemical binding]; other site 331636001571 Q-loop/lid; other site 331636001572 ABC transporter signature motif; other site 331636001573 Walker B; other site 331636001574 D-loop; other site 331636001575 H-loop/switch region; other site 331636001576 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 331636001577 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 331636001578 Ligand binding site; other site 331636001579 oligomer interface; other site 331636001580 CTP synthetase; Validated; Region: pyrG; PRK05380 331636001581 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 331636001582 Catalytic site [active] 331636001583 active site 331636001584 UTP binding site [chemical binding]; other site 331636001585 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 331636001586 active site 331636001587 putative oxyanion hole; other site 331636001588 catalytic triad [active] 331636001589 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 331636001590 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 331636001591 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 331636001592 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 331636001593 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 331636001594 peptide binding site [polypeptide binding]; other site 331636001595 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 331636001596 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 331636001597 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 331636001598 dimer interface [polypeptide binding]; other site 331636001599 conserved gate region; other site 331636001600 putative PBP binding loops; other site 331636001601 ABC-ATPase subunit interface; other site 331636001602 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 331636001603 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 331636001604 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 331636001605 dimer interface [polypeptide binding]; other site 331636001606 conserved gate region; other site 331636001607 putative PBP binding loops; other site 331636001608 ABC-ATPase subunit interface; other site 331636001609 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 331636001610 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 331636001611 Walker A/P-loop; other site 331636001612 ATP binding site [chemical binding]; other site 331636001613 Q-loop/lid; other site 331636001614 ABC transporter signature motif; other site 331636001615 Walker B; other site 331636001616 D-loop; other site 331636001617 H-loop/switch region; other site 331636001618 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 331636001619 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 331636001620 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 331636001621 Walker A/P-loop; other site 331636001622 ATP binding site [chemical binding]; other site 331636001623 Q-loop/lid; other site 331636001624 ABC transporter signature motif; other site 331636001625 Walker B; other site 331636001626 D-loop; other site 331636001627 H-loop/switch region; other site 331636001628 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 331636001629 Protein of unknown function (DUF1186); Region: DUF1186; pfam06685 331636001630 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 331636001631 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 331636001632 transmembrane helices; other site 331636001633 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 331636001634 active site 331636001635 ADP/pyrophosphate binding site [chemical binding]; other site 331636001636 dimerization interface [polypeptide binding]; other site 331636001637 allosteric effector site; other site 331636001638 fructose-1,6-bisphosphate binding site; other site 331636001639 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 331636001640 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 331636001641 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 331636001642 active site 331636001643 ADP/pyrophosphate binding site [chemical binding]; other site 331636001644 dimerization interface [polypeptide binding]; other site 331636001645 allosteric effector site; other site 331636001646 fructose-1,6-bisphosphate binding site; other site 331636001647 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 331636001648 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 331636001649 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 331636001650 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 331636001651 HIGH motif; other site 331636001652 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 331636001653 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 331636001654 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 331636001655 active site 331636001656 KMSKS motif; other site 331636001657 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 331636001658 tRNA binding surface [nucleotide binding]; other site 331636001659 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 331636001660 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 331636001661 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 331636001662 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 331636001663 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636001664 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 331636001665 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 331636001666 nucleotide binding pocket [chemical binding]; other site 331636001667 K-X-D-G motif; other site 331636001668 catalytic site [active] 331636001669 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 331636001670 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 331636001671 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 331636001672 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 331636001673 Dimer interface [polypeptide binding]; other site 331636001674 BRCT sequence motif; other site 331636001675 Catalytic domain of Protein Kinases; Region: PKc; cd00180 331636001676 active site 331636001677 ATP binding site [chemical binding]; other site 331636001678 substrate binding site [chemical binding]; other site 331636001679 activation loop (A-loop); other site 331636001680 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 331636001681 IncA protein; Region: IncA; pfam04156 331636001682 Uncharacterized conserved protein [Function unknown]; Region: COG2912 331636001683 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 331636001684 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 331636001685 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 331636001686 TPR motif; other site 331636001687 binding surface 331636001688 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331636001689 adhesin; Provisional; Region: PRK09752 331636001690 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636001691 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 331636001692 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636001693 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 331636001694 adhesin; Provisional; Region: PRK09752 331636001695 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 331636001696 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636001697 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 331636001698 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 331636001699 Clp amino terminal domain; Region: Clp_N; pfam02861 331636001700 Clp amino terminal domain; Region: Clp_N; pfam02861 331636001701 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 331636001702 Walker A motif; other site 331636001703 ATP binding site [chemical binding]; other site 331636001704 Walker B motif; other site 331636001705 arginine finger; other site 331636001706 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 331636001707 Walker A motif; other site 331636001708 ATP binding site [chemical binding]; other site 331636001709 Walker B motif; other site 331636001710 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 331636001711 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 331636001712 mce related protein; Region: MCE; pfam02470 331636001713 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 331636001714 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001715 Walker A/P-loop; other site 331636001716 ATP binding site [chemical binding]; other site 331636001717 Q-loop/lid; other site 331636001718 ABC transporter signature motif; other site 331636001719 Walker B; other site 331636001720 D-loop; other site 331636001721 H-loop/switch region; other site 331636001722 Permease; Region: Permease; cl00510 331636001723 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00615 331636001724 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 331636001725 inhibitor-cofactor binding pocket; inhibition site 331636001726 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331636001727 catalytic residue [active] 331636001728 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 331636001729 Bifunctional nuclease; Region: DNase-RNase; cl00553 331636001730 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 331636001731 tetramer (dimer of dimers) interface [polypeptide binding]; other site 331636001732 active site 331636001733 dimer interface [polypeptide binding]; other site 331636001734 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 331636001735 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 331636001736 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 331636001737 Uncharacterized conserved protein [Function unknown]; Region: COG0327 331636001738 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 331636001739 oligoendopeptidase F; Region: pepF; TIGR00181 331636001740 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 331636001741 active site 331636001742 Zn binding site [ion binding]; other site 331636001743 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 331636001744 oligomerisation interface [polypeptide binding]; other site 331636001745 mobile loop; other site 331636001746 roof hairpin; other site 331636001747 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 331636001748 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 331636001749 ring oligomerisation interface [polypeptide binding]; other site 331636001750 ATP/Mg binding site [chemical binding]; other site 331636001751 stacking interactions; other site 331636001752 hinge regions; other site 331636001753 Uncharacterized conserved protein [Function unknown]; Region: COG4285 331636001754 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 331636001755 conserved cys residue [active] 331636001756 EamA-like transporter family; Region: EamA; cl01037 331636001757 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 331636001758 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001759 Family description; Region: UvrD_C_2; cl15862 331636001760 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 331636001761 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 331636001762 active site 331636001763 HIGH motif; other site 331636001764 KMSKS motif; other site 331636001765 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 331636001766 tRNA binding surface [nucleotide binding]; other site 331636001767 anticodon binding site; other site 331636001768 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 331636001769 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 331636001770 catalytic site [active] 331636001771 G-X2-G-X-G-K; other site 331636001772 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 331636001773 RNA/DNA hybrid binding site [nucleotide binding]; other site 331636001774 active site 331636001775 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 331636001776 tRNA (guanine-N(1)-)-methyltransferase/unknown domain fusion protein; Reviewed; Region: trmD; PRK01037 331636001777 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 331636001778 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 331636001779 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 331636001780 signal recognition particle protein; Provisional; Region: PRK10867 331636001781 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 331636001782 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 331636001783 P loop; other site 331636001784 GTP binding site [chemical binding]; other site 331636001785 Signal peptide binding domain; Region: SRP_SPB; pfam02978 331636001786 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 331636001787 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 331636001788 S-adenosylmethionine binding site [chemical binding]; other site 331636001789 peptide chain release factor 1; Validated; Region: prfA; PRK00591 331636001790 RF-1 domain; Region: RF-1; cl02875 331636001791 RF-1 domain; Region: RF-1; cl02875 331636001792 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 331636001793 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 331636001794 Catalytic site [active] 331636001795 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 331636001796 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 331636001797 Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: IleS; COG0060 331636001798 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 331636001799 HIGH motif; other site 331636001800 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 331636001801 active site 331636001802 KMSKS motif; other site 331636001803 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 331636001804 tRNA binding surface [nucleotide binding]; other site 331636001805 anticodon binding site; other site 331636001806 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 331636001807 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 331636001808 putative active site [active] 331636001809 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001810 Bacterial SH3 domain; Region: SH3_3; cl02551 331636001811 Bacterial SH3 domain; Region: SH3_3; cl02551 331636001812 BNR repeat-like domain; Region: BNR_2; pfam13088 331636001813 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 331636001814 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 331636001815 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 331636001816 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 331636001817 Uncharacterized conserved protein [Function unknown]; Region: COG1624 331636001818 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 331636001819 lipid A biosynthesis lauroyl acyltransferase; Provisional; Region: PRK05906 331636001820 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 331636001821 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 331636001822 putative acyl-acceptor binding pocket; other site 331636001823 pyruvate kinase; Provisional; Region: PRK05826 331636001824 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 331636001825 domain interfaces; other site 331636001826 active site 331636001827 excinuclease ABC subunit A; Provisional; Region: PRK00635 331636001828 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001829 Walker A/P-loop; other site 331636001830 ATP binding site [chemical binding]; other site 331636001831 Q-loop/lid; other site 331636001832 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 331636001833 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 331636001834 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001835 Walker A/P-loop; other site 331636001836 ATP binding site [chemical binding]; other site 331636001837 Q-loop/lid; other site 331636001838 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001839 ABC transporter signature motif; other site 331636001840 Walker B; other site 331636001841 D-loop; other site 331636001842 H-loop/switch region; other site 331636001843 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001844 Walker A/P-loop; other site 331636001845 ATP binding site [chemical binding]; other site 331636001846 Q-loop/lid; other site 331636001847 ABC transporter signature motif; other site 331636001848 Walker B; other site 331636001849 D-loop; other site 331636001850 H-loop/switch region; other site 331636001851 serine/threonine-protein kinase; Reviewed; Region: pknD; PRK13184 331636001852 Catalytic domain of Protein Kinases; Region: PKc; cd00180 331636001853 active site 331636001854 ATP binding site [chemical binding]; other site 331636001855 substrate binding site [chemical binding]; other site 331636001856 activation loop (A-loop); other site 331636001857 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 331636001858 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 331636001859 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 331636001860 active site 331636001861 HIGH motif; other site 331636001862 nucleotide binding site [chemical binding]; other site 331636001863 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 331636001864 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 331636001865 active site 331636001866 KMSKS motif; other site 331636001867 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 331636001868 tRNA binding surface [nucleotide binding]; other site 331636001869 anticodon binding site; other site 331636001870 V-type ATP synthase subunit K; Provisional; Region: PRK09621 331636001871 ATP synthase subunit C; Region: ATP-synt_C; cl00466 331636001872 V-type ATP synthase subunit I; Validated; Region: PRK05771 331636001873 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 331636001874 ATP synthase subunit D; Region: ATP-synt_D; cl00613 331636001875 V-type ATP synthase subunit B; Provisional; Region: PRK02118 331636001876 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 331636001877 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 331636001878 Walker A motif homologous position; other site 331636001879 Walker B motif; other site 331636001880 V-type ATP synthase subunit A; Provisional; Region: PRK04192 331636001881 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 331636001882 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 331636001883 Walker A motif/ATP binding site; other site 331636001884 Walker B motif; other site 331636001885 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 331636001886 Protein of unknown function (DUF2764); Region: DUF2764; pfam10962 331636001887 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 331636001888 transaldolase-like protein; Provisional; Region: PTZ00411 331636001889 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 331636001890 active site 331636001891 dimer interface [polypeptide binding]; other site 331636001892 catalytic residue [active] 331636001893 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 331636001894 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 331636001895 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 331636001896 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 331636001897 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 331636001898 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 331636001899 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 331636001900 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 331636001901 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 331636001902 DNA binding site [nucleotide binding] 331636001903 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 331636001904 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; pfam04563 331636001905 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 331636001906 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 331636001907 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 331636001908 RPB12 interaction site [polypeptide binding]; other site 331636001909 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 331636001910 RPB11 interaction site [polypeptide binding]; other site 331636001911 RPB12 interaction site [polypeptide binding]; other site 331636001912 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 331636001913 RPB3 interaction site [polypeptide binding]; other site 331636001914 RPB1 interaction site [polypeptide binding]; other site 331636001915 RPB11 interaction site [polypeptide binding]; other site 331636001916 RPB10 interaction site [polypeptide binding]; other site 331636001917 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 331636001918 L11 interface [polypeptide binding]; other site 331636001919 putative EF-Tu interaction site [polypeptide binding]; other site 331636001920 putative EF-G interaction site [polypeptide binding]; other site 331636001921 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 331636001922 23S rRNA interface [nucleotide binding]; other site 331636001923 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 331636001924 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 331636001925 mRNA/rRNA interface [nucleotide binding]; other site 331636001926 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 331636001927 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 331636001928 23S rRNA interface [nucleotide binding]; other site 331636001929 L7/L12 interface [polypeptide binding]; other site 331636001930 putative thiostrepton binding site; other site 331636001931 L25 interface [polypeptide binding]; other site 331636001932 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 331636001933 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 331636001934 putative homodimer interface [polypeptide binding]; other site 331636001935 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 331636001936 elongation factor Tu; Reviewed; Region: PRK12735 331636001937 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 331636001938 G1 box; other site 331636001939 GEF interaction site [polypeptide binding]; other site 331636001940 GTP/Mg2+ binding site [chemical binding]; other site 331636001941 Switch I region; other site 331636001942 G2 box; other site 331636001943 G3 box; other site 331636001944 Switch II region; other site 331636001945 G4 box; other site 331636001946 G5 box; other site 331636001947 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 331636001948 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 331636001949 Antibiotic Binding Site [chemical binding]; other site 331636001950 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 331636001951 rRNA binding site [nucleotide binding]; other site 331636001952 predicted 30S ribosome binding site; other site 331636001953 Fe-S metabolism associated domain; Region: SufE; cl00951 331636001954 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 331636001955 Protein of unknown function (DUF687); Region: DUF687; pfam05095 331636001956 dihydrodipicolinate synthase; Region: dapA; TIGR00674 331636001957 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 331636001958 dimer interface [polypeptide binding]; other site 331636001959 active site 331636001960 catalytic residue [active] 331636001961 aspartate kinase; Provisional; Region: PRK05925 331636001962 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 331636001963 putative catalytic residues [active] 331636001964 nucleotide binding site [chemical binding]; other site 331636001965 aspartate binding site [chemical binding]; other site 331636001966 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 331636001967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636001968 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 331636001969 dihydrodipicolinate reductase; Provisional; Region: PRK00048 331636001970 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636001971 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 331636001972 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 331636001973 cofactor binding site; other site 331636001974 metal binding site [ion binding]; metal-binding site 331636001975 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 331636001976 Ulp1 protease family, C-terminal catalytic domain; Region: Peptidase_C48; pfam02902 331636001977 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636001978 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 331636001979 NAD(P) binding site [chemical binding]; other site 331636001980 active site 331636001981 biotin synthase; Region: bioB; TIGR00433 331636001982 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 331636001983 FeS/SAM binding site; other site 331636001984 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 331636001985 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 331636001986 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 331636001987 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 331636001988 catalytic residue [active] 331636001989 AAA domain; Region: AAA_26; pfam13500 331636001990 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636001991 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 331636001992 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 331636001993 inhibitor-cofactor binding pocket; inhibition site 331636001994 pyridoxal 5'-phosphate binding site [chemical binding]; other site 331636001995 catalytic residue [active] 331636001996 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 331636001997 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 331636001998 hinge; other site 331636001999 active site 331636002000 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636002001 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 331636002002 Tetramer interface [polypeptide binding]; other site 331636002003 active site 331636002004 FMN-binding site [chemical binding]; other site 331636002005 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 331636002006 active site 331636002007 dimer interface [polypeptide binding]; other site 331636002008 metal binding site [ion binding]; metal-binding site 331636002009 bifunctional 3-dehydroquinate dehydratase/shikimate dehydrogenase protein; Reviewed; Region: aroDE; PRK09310 331636002010 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 331636002011 active site 331636002012 catalytic residue [active] 331636002013 dimer interface [polypeptide binding]; other site 331636002014 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 331636002015 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 331636002016 shikimate binding site; other site 331636002017 NAD(P) binding site [chemical binding]; other site 331636002018 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 331636002019 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 331636002020 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 331636002021 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; cl00849 331636002022 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 331636002023 Spore germination protein; Region: Spore_permease; cl15802 331636002024 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 331636002025 malate dehydrogenase; Provisional; Region: PRK05442 331636002026 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636002027 NAD(P) binding site [chemical binding]; other site 331636002028 LDH/MDH dimer interface [polypeptide binding]; other site 331636002029 substrate binding site [chemical binding]; other site 331636002030 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14095 331636002031 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 331636002032 active site 331636002033 dimer interface [polypeptide binding]; other site 331636002034 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 331636002035 dimer interface [polypeptide binding]; other site 331636002036 active site 331636002037 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 331636002038 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 331636002039 active site 331636002040 DNA binding site [nucleotide binding] 331636002041 Int/Topo IB signature motif; other site 331636002042 Protein of unknown function (DUF342); Region: DUF342; pfam03961 331636002043 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 331636002044 Tetratricopeptide repeat; Region: TPR_3; pfam07720 331636002045 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 331636002046 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 331636002047 LytB protein; Region: LYTB; cl00507 331636002048 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 331636002049 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 331636002050 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 331636002051 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 331636002052 Active site serine [active] 331636002053 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 331636002054 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 331636002055 transmembrane helices; other site 331636002056 high affinity sulphate transporter 1; Region: sulP; TIGR00815 331636002057 Sulfate transporter family; Region: Sulfate_transp; cl15842 331636002058 Sulfate transporter family; Region: Sulfate_transp; cl15842 331636002059 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 331636002060 fumarate hydratase; Reviewed; Region: fumC; PRK00485 331636002061 Class II fumarases; Region: Fumarase_classII; cd01362 331636002062 active site 331636002063 tetramer interface [polypeptide binding]; other site 331636002064 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 331636002065 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 331636002066 dimer interface [polypeptide binding]; other site 331636002067 conserved gate region; other site 331636002068 putative PBP binding loops; other site 331636002069 ABC-ATPase subunit interface; other site 331636002070 NMT1/THI5 like; Region: NMT1; pfam09084 331636002071 NMT1-like family; Region: NMT1_2; cl15260 331636002072 MarC family integral membrane protein; Region: MarC; cl00919 331636002073 MarC family integral membrane protein; Region: MarC; cl00919 331636002074 methionine aminopeptidase; Provisional; Region: PRK12318 331636002075 SEC-C motif; Region: SEC-C; pfam02810 331636002076 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 331636002077 active site 331636002078 Protein of unknown function (DUF720); Region: DUF720; pfam05302 331636002079 Protein of unknown function (DUF720); Region: DUF720; pfam05302 331636002080 Protein of unknown function (DUF720); Region: DUF720; pfam05302 331636002081 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 331636002082 nucleoside/Zn binding site; other site 331636002083 dimer interface [polypeptide binding]; other site 331636002084 catalytic motif [active] 331636002085 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 331636002086 16S/18S rRNA binding site [nucleotide binding]; other site 331636002087 S13e-L30e interaction site [polypeptide binding]; other site 331636002088 25S rRNA binding site [nucleotide binding]; other site 331636002089 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 331636002090 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 331636002091 RNase E interface [polypeptide binding]; other site 331636002092 trimer interface [polypeptide binding]; other site 331636002093 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 331636002094 RNase E interface [polypeptide binding]; other site 331636002095 trimer interface [polypeptide binding]; other site 331636002096 active site 331636002097 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 331636002098 putative nucleic acid binding region [nucleotide binding]; other site 331636002099 G-X-X-G motif; other site 331636002100 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 331636002101 RNA binding site [nucleotide binding]; other site 331636002102 domain interface; other site 331636002103 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 331636002104 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 331636002105 Walker A motif; other site 331636002106 ATP binding site [chemical binding]; other site 331636002107 Walker B motif; other site 331636002108 arginine finger; other site 331636002109 Peptidase family M41; Region: Peptidase_M41; pfam01434 331636002110 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 331636002111 Ligand Binding Site [chemical binding]; other site 331636002112 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 331636002113 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 331636002114 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 331636002115 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 331636002116 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 331636002117 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 331636002118 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 331636002119 motif 1; other site 331636002120 dimer interface [polypeptide binding]; other site 331636002121 active site 331636002122 motif 2; other site 331636002123 motif 3; other site 331636002124 ribosomal protein L20; Region: rpl20; CHL00068 331636002125 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 331636002126 23S rRNA binding site [nucleotide binding]; other site 331636002127 L21 binding site [polypeptide binding]; other site 331636002128 L13 binding site [polypeptide binding]; other site 331636002129 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 331636002130 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 331636002131 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 331636002132 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 331636002133 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 331636002134 putative RNA binding site [nucleotide binding]; other site 331636002135 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 331636002136 FAD binding domain; Region: FAD_binding_4; pfam01565 331636002137 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 331636002138 hypothetical protein; Provisional; Region: PRK08317 331636002139 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 331636002140 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 331636002141 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 331636002142 dimer interface [polypeptide binding]; other site 331636002143 putative radical transfer pathway; other site 331636002144 diiron center [ion binding]; other site 331636002145 tyrosyl radical; other site 331636002146 ribonucleotide-diphosphate reductase subunit alpha; Provisional; Region: PRK12365 331636002147 ATP cone domain; Region: ATP-cone; pfam03477 331636002148 ATP cone domain; Region: ATP-cone; pfam03477 331636002149 ATP cone domain; Region: ATP-cone; pfam03477 331636002150 Class I ribonucleotide reductase; Region: RNR_I; cd01679 331636002151 active site 331636002152 dimer interface [polypeptide binding]; other site 331636002153 catalytic residues [active] 331636002154 effector binding site; other site 331636002155 R2 peptide binding site; other site 331636002156 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 331636002157 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 331636002158 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 331636002159 RmuC family; Region: RmuC; pfam02646 331636002160 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 331636002161 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 331636002162 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 331636002163 Peptidase M16C associated; Region: M16C_assoc; pfam08367 331636002164 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 331636002165 hypothetical protein; Provisional; Region: PRK08201 331636002166 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 331636002167 metal binding site [ion binding]; metal-binding site 331636002168 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 331636002169 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 331636002170 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 331636002171 protein binding site [polypeptide binding]; other site 331636002172 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 331636002173 protein binding site [polypeptide binding]; other site 331636002174 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 331636002175 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636002176 CoA-ligase; Region: Ligase_CoA; cl02894 331636002177 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 331636002178 ATP-grasp domain; Region: ATP-grasp_4; cl03087 331636002179 CoA-ligase; Region: Ligase_CoA; cl02894 331636002180 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 331636002181 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 331636002182 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 331636002183 P loop; other site 331636002184 GTP binding site [chemical binding]; other site 331636002185 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 331636002186 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 331636002187 aromatic amino acid transport protein; Region: araaP; TIGR00837 331636002188 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 331636002189 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 331636002190 glutaminase active site [active] 331636002191 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 331636002192 dimer interface [polypeptide binding]; other site 331636002193 active site 331636002194 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 331636002195 dimer interface [polypeptide binding]; other site 331636002196 active site 331636002197 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 331636002198 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 331636002199 active site 331636002200 substrate binding site [chemical binding]; other site 331636002201 metal binding site [ion binding]; metal-binding site 331636002202 poly(A) polymerase; Region: pcnB; TIGR01942 331636002203 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 331636002204 active site 331636002205 NTP binding site [chemical binding]; other site 331636002206 metal binding triad [ion binding]; metal-binding site 331636002207 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 331636002208 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK01021 331636002209 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 331636002210 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 331636002211 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 331636002212 IncA protein; Region: IncA; pfam04156 331636002213 IncA protein; Region: IncA; pfam04156 331636002214 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 331636002215 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 331636002216 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 331636002217 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 331636002218 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 331636002219 IncA protein; Region: IncA; pfam04156 331636002220 IncA protein; Region: IncA; pfam04156 331636002221 Domain of Unknown Function (DUF1539); Region: DUF1539; pfam07560 331636002222 Domain of Unknown Function (DUF1548); Region: DUF1548; pfam07579 331636002223 Domain of Unknown Function (DUF1539); Region: DUF1539; pfam07560 331636002224 Domain of Unknown Function (DUF1539); Region: DUF1539; pfam07560 331636002225 Domain of Unknown Function (DUF1548); Region: DUF1548; pfam07579 331636002226 Domain of Unknown Function (DUF1539); Region: DUF1539; pfam07560 331636002227 Domain of Unknown Function (DUF1548); Region: DUF1548; pfam07579 331636002228 adhesin; Provisional; Region: PRK09752 331636002229 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 331636002230 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 331636002231 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 331636002232 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 331636002233 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 331636002234 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 331636002235 homodimer interface [polypeptide binding]; other site 331636002236 oligonucleotide binding site [chemical binding]; other site 331636002237 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT; Region: LPLAT_GPAT; cd07985 331636002238 putative G3P-binding pocket; other site 331636002239 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 331636002240 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 331636002241 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 331636002242 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 331636002243 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 331636002244 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK00650 331636002245 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 331636002246 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 331636002247 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 331636002248 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 331636002249 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 331636002250 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 331636002251 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 331636002252 putative active site [active] 331636002253 catalytic residue [active] 331636002254 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 331636002255 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 331636002256 5S rRNA interface [nucleotide binding]; other site 331636002257 CTC domain interface [polypeptide binding]; other site 331636002258 L16 interface [polypeptide binding]; other site 331636002259 glycogen synthase; Provisional; Region: glgA; PRK00654 331636002260 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 331636002261 ADP-binding pocket [chemical binding]; other site 331636002262 homodimer interface [polypeptide binding]; other site 331636002263 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 331636002264 glycyl-tRNA synthetase; Provisional; Region: PRK14908 331636002265 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 331636002266 dimer interface [polypeptide binding]; other site 331636002267 motif 1; other site 331636002268 active site 331636002269 motif 2; other site 331636002270 motif 3; other site 331636002271 DNA primase; Validated; Region: dnaG; PRK05667 331636002272 CHC2 zinc finger; Region: zf-CHC2; cl15369 331636002273 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 331636002274 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 331636002275 active site 331636002276 metal binding site [ion binding]; metal-binding site 331636002277 interdomain interaction site; other site 331636002278 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 331636002279 MutS domain I; Region: MutS_I; pfam01624 331636002280 MutS domain II; Region: MutS_II; pfam05188 331636002281 MutS family domain IV; Region: MutS_IV; pfam05190 331636002282 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 331636002283 Walker A/P-loop; other site 331636002284 ATP binding site [chemical binding]; other site 331636002285 Q-loop/lid; other site 331636002286 ABC transporter signature motif; other site 331636002287 Walker B; other site 331636002288 D-loop; other site 331636002289 H-loop/switch region; other site 331636002290 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 331636002291 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 331636002292 active site 331636002293 catalytic site [active] 331636002294 putative DNA binding site [nucleotide binding]; other site 331636002295 GIY-YIG motif/motif A; other site 331636002296 metal binding site [ion binding]; metal-binding site 331636002297 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 331636002298 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 331636002299 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 331636002300 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 331636002301 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 331636002302 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 331636002303 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 331636002304 active site 331636002305 HIGH motif; other site 331636002306 nucleotide binding site [chemical binding]; other site 331636002307 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 331636002308 KMSKS motif; other site 331636002309 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 331636002310 tRNA binding surface [nucleotide binding]; other site 331636002311 anticodon binding site; other site 331636002312 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 331636002313 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 331636002314 dimer interface [polypeptide binding]; other site 331636002315 putative anticodon binding site; other site 331636002316 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 331636002317 motif 1; other site 331636002318 dimer interface [polypeptide binding]; other site 331636002319 active site 331636002320 motif 2; other site 331636002321 motif 3; other site 331636002322 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 331636002323 primosome assembly protein PriA; Validated; Region: PRK05580 331636002324 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 331636002325 ATP binding site [chemical binding]; other site 331636002326 putative Mg++ binding site [ion binding]; other site 331636002327 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636002328 long chain fatty acid--[acyl-carrier-protein] ligase; Validated; Region: PRK06334 331636002329 AMP-binding enzyme; Region: AMP-binding; cl15778 331636002330 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 331636002331 putative acyl-acceptor binding pocket; other site 331636002332 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 331636002333 active site 331636002334 putative lithium-binding site [ion binding]; other site 331636002335 substrate binding site [chemical binding]; other site 331636002336 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 331636002337 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 331636002338 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 331636002339 NAD binding site [chemical binding]; other site 331636002340 Phe binding site; other site 331636002341 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 331636002342 dimer interface [polypeptide binding]; other site 331636002343 substrate binding site [chemical binding]; other site 331636002344 metal binding sites [ion binding]; metal-binding site 331636002345 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 331636002346 active site 331636002347 Ap4A binding cleft/pocket [chemical binding]; other site 331636002348 P4 phosphate binding site; other site 331636002349 nudix motif; other site 331636002350 putative P2/P3 phosphate binding site [ion binding]; other site 331636002351 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 331636002352 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 331636002353 dimer interface [polypeptide binding]; other site 331636002354 active site 331636002355 Oligomerisation domain; Region: Oligomerisation; cl00519 331636002356 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 331636002357 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 331636002358 hypothetical protein; Provisional; Region: PRK05927 331636002359 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 331636002360 FeS/SAM binding site; other site 331636002361 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 331636002362 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636002363 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 331636002364 anti sigma factor interaction site; other site 331636002365 regulatory phosphorylation site [posttranslational modification]; other site 331636002366 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 331636002367 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 331636002368 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 331636002369 bifunctional D-alanyl-alanine synthetase A/UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: PRK14573 331636002370 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 331636002371 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 331636002372 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 331636002373 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 331636002374 ATP-grasp domain; Region: ATP-grasp_4; cl03087 331636002375 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 331636002376 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 331636002377 homodimer interface [polypeptide binding]; other site 331636002378 active site 331636002379 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 331636002380 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 331636002381 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 331636002382 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK00683 331636002383 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 331636002384 S-adenosylmethionine binding site [chemical binding]; other site 331636002385 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636002386 Walker A/P-loop; other site 331636002387 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 331636002388 ATP binding site [chemical binding]; other site 331636002389 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 331636002390 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 331636002391 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 331636002392 Mg++ binding site [ion binding]; other site 331636002393 putative catalytic motif [active] 331636002394 putative substrate binding site [chemical binding]; other site 331636002395 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 331636002396 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 331636002397 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 331636002398 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 331636002399 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 331636002400 TCP-1/cpn60 chaperonin family; Region: Cpn60_TCP1; pfam00118 331636002401 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 331636002402 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 331636002403 active site 331636002404 metal binding site [ion binding]; metal-binding site 331636002405 elongation factor P; Validated; Region: PRK00529 331636002406 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 331636002407 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 331636002408 RNA binding site [nucleotide binding]; other site 331636002409 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 331636002410 RNA binding site [nucleotide binding]; other site 331636002411 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 331636002412 transketolase; Reviewed; Region: PRK05899 331636002413 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 331636002414 TPP-binding site [chemical binding]; other site 331636002415 dimer interface [polypeptide binding]; other site 331636002416 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 331636002417 PYR/PP interface [polypeptide binding]; other site 331636002418 dimer interface [polypeptide binding]; other site 331636002419 TPP binding site [chemical binding]; other site 331636002420 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 331636002421 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 331636002422 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 331636002423 motif 1; other site 331636002424 active site 331636002425 motif 2; other site 331636002426 motif 3; other site 331636002427 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 331636002428 DHHA1 domain; Region: DHHA1; pfam02272 331636002429 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 331636002430 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 331636002431 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 331636002432 ATP binding site [chemical binding]; other site 331636002433 putative Mg++ binding site [ion binding]; other site 331636002434 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 331636002435 nucleotide binding region [chemical binding]; other site 331636002436 ATP-binding site [chemical binding]; other site 331636002437 TRCF domain; Region: TRCF; cl04088 331636002438 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 331636002439 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 331636002440 HemN C-terminal domain; Region: HemN_C; pfam06969 331636002441 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 331636002442 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636002443 Histone H1-like protein Hc1; Region: Hc1; pfam07432 331636002444 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 331636002445 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 331636002446 S-adenosylmethionine binding site [chemical binding]; other site 331636002447 Preprotein translocase subunit; Region: YajC; cl00806 331636002448 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 331636002449 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 331636002450 catalytic loop [active] 331636002451 iron binding site [ion binding]; other site 331636002452 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 331636002453 FAD binding pocket [chemical binding]; other site 331636002454 FAD binding motif [chemical binding]; other site 331636002455 phosphate binding motif [ion binding]; other site 331636002456 beta-alpha-beta structure motif; other site 331636002457 NAD binding pocket [chemical binding]; other site 331636002458 Protein of unknown function (DUF687); Region: DUF687; pfam05095 331636002459 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 331636002460 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636002461 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 331636002462 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 331636002463 SET domain; Region: SET; cl02566 331636002464 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 331636002465 substrate binding site [chemical binding]; other site 331636002466 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 331636002467 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 331636002468 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 331636002469 homopentamer interface [polypeptide binding]; other site 331636002470 active site 331636002471 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 331636002472 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 331636002473 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 331636002474 dimerization interface [polypeptide binding]; other site 331636002475 active site 331636002476 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 331636002477 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 331636002478 catalytic motif [active] 331636002479 Zn binding site [ion binding]; other site 331636002480 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 331636002481 seryl-tRNA synthetase; Provisional; Region: PRK05431 331636002482 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 331636002483 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 331636002484 dimer interface [polypeptide binding]; other site 331636002485 active site 331636002486 motif 1; other site 331636002487 motif 2; other site 331636002488 motif 3; other site 331636002489 CCC1-related protein family; Region: CCC1_like_1; cd02437 331636002490 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 331636002491 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 331636002492 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 331636002493 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 331636002494 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 331636002495 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 331636002496 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 331636002497 RNA binding surface [nucleotide binding]; other site 331636002498 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 331636002499 active site 331636002500 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 331636002501 catalytic core [active] 331636002502 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 331636002503 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 331636002504 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 331636002505 catalytic residue [active] 331636002506 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 331636002507 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 331636002508 NifU-like domain; Region: NifU; cl00484 331636002509 type III secretion system protein; Validated; Region: PRK05934 331636002510 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 331636002511 MgtE intracellular N domain; Region: MgtE_N; cl15244 331636002512 flagellar assembly protein H; Validated; Region: fliH; PRK06669 331636002513 type III secretion system ATPase; Validated; Region: PRK05922 331636002514 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636002515 Walker A motif; other site 331636002516 ATP binding site [chemical binding]; other site 331636002517 Walker B motif; other site 331636002518 UDP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: COG4284 331636002519 UDPGlcNAc pyrophosphorylase catalayzes the synthesis of UDPGlcNAc; Region: UDPGlcNAc_PPase; cd04193 331636002520 substrate binding site; other site 331636002521 dimerization interface; other site 331636002522 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 331636002523 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636002524 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 331636002525 Chlamydia major outer membrane protein; Region: Chlam_OMP; pfam01308 331636002526 Effector from type III secretion system; Region: Effector_1; pfam04518 331636002527 Effector from type III secretion system; Region: Effector_1; pfam04518 331636002528 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 331636002529 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 331636002530 active site 331636002531 substrate-binding site [chemical binding]; other site 331636002532 metal-binding site [ion binding] 331636002533 GTP binding site [chemical binding]; other site 331636002534 rod shape-determining protein MreB; Provisional; Region: PRK13927 331636002535 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 331636002536 ATP binding site [chemical binding]; other site 331636002537 profilin binding site; other site 331636002538 gelsolin binding site; other site 331636002539 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 331636002540 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 331636002541 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 331636002542 ATP binding site [chemical binding]; other site 331636002543 putative Mg++ binding site [ion binding]; other site 331636002544 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 331636002545 nucleotide binding region [chemical binding]; other site 331636002546 ATP-binding site [chemical binding]; other site 331636002547 trigger factor; Provisional; Region: tig; PRK01490 331636002548 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 331636002549 Clp protease; Region: CLP_protease; pfam00574 331636002550 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 331636002551 oligomer interface [polypeptide binding]; other site 331636002552 active site residues [active] 331636002553 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 331636002554 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 331636002555 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 331636002556 Walker A motif; other site 331636002557 ATP binding site [chemical binding]; other site 331636002558 Walker B motif; other site 331636002559 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 331636002560 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 331636002561 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 331636002562 active site 331636002563 NTP binding site [chemical binding]; other site 331636002564 metal binding triad [ion binding]; metal-binding site 331636002565 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 331636002566 GTP-binding protein Der; Reviewed; Region: PRK00093 331636002567 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 331636002568 G1 box; other site 331636002569 GTP/Mg2+ binding site [chemical binding]; other site 331636002570 Switch I region; other site 331636002571 G2 box; other site 331636002572 Switch II region; other site 331636002573 G3 box; other site 331636002574 G4 box; other site 331636002575 G5 box; other site 331636002576 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 331636002577 G1 box; other site 331636002578 GTP/Mg2+ binding site [chemical binding]; other site 331636002579 Switch I region; other site 331636002580 G2 box; other site 331636002581 G3 box; other site 331636002582 Switch II region; other site 331636002583 G4 box; other site 331636002584 G5 box; other site 331636002585 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12899 331636002586 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636002587 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 331636002588 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 331636002589 nucleotide binding region [chemical binding]; other site 331636002590 ATP-binding site [chemical binding]; other site 331636002591 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 331636002592 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 331636002593 binding surface 331636002594 TPR motif; other site 331636002595 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 331636002596 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 331636002597 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 331636002598 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 331636002599 trmE is a tRNA modification GTPase; Region: trmE; cd04164 331636002600 G1 box; other site 331636002601 GTP/Mg2+ binding site [chemical binding]; other site 331636002602 Switch I region; other site 331636002603 G2 box; other site 331636002604 Switch II region; other site 331636002605 G3 box; other site 331636002606 G4 box; other site 331636002607 G5 box; other site 331636002608 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 331636002609 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 331636002610 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 331636002611 minor groove reading motif; other site 331636002612 helix-hairpin-helix signature motif; other site 331636002613 substrate binding pocket [chemical binding]; other site 331636002614 active site 331636002615 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 331636002616 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 331636002617 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 331636002618 ATP binding site [chemical binding]; other site 331636002619 putative Mg++ binding site [ion binding]; other site 331636002620 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 331636002621 nucleotide binding region [chemical binding]; other site 331636002622 ATP-binding site [chemical binding]; other site 331636002623 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 331636002624 glycerol-3-phosphate dehydrogenase, anaerobic, B subunit; Region: glycerol3P_GlpB; TIGR03378 331636002625 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 331636002626 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 331636002627 lipoyl synthase; Provisional; Region: PRK05481 331636002628 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 331636002629 FeS/SAM binding site; other site 331636002630 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 331636002631 type III secretion system protein; Validated; Region: PRK06328 331636002632 Flagellar assembly protein FliH; Region: FliH; pfam02108 331636002633 FliP family; Region: FliP; cl00593 331636002634 FliP family; Region: FliP; cl00593 331636002635 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 331636002636 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 331636002637 Protein of unknown function (DUF1494); Region: DUF1494; pfam07379 331636002638 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 331636002639 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 331636002640 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 331636002641 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 331636002642 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 331636002643 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 331636002644 type II secretion system protein E; Region: type_II_gspE; TIGR02533 331636002645 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 331636002646 Walker A motif; other site 331636002647 ATP binding site [chemical binding]; other site 331636002648 Walker B motif; other site 331636002649 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 331636002650 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 331636002651 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 331636002652 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 331636002653 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 331636002654 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 331636002655 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 331636002656 active site 331636002657 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 331636002658 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 331636002659 ATP binding site [chemical binding]; other site 331636002660 Mg2+ binding site [ion binding]; other site 331636002661 G-X-G motif; other site 331636002662 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 331636002663 ATP binding site [chemical binding]; other site 331636002664 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 331636002665 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 331636002666 Tetratricopeptide repeat; Region: TPR_3; pfam07720 331636002667 pathogenicity island 2 effector protein SseC; Provisional; Region: PRK15362 331636002668 Secretion system effector C (SseC) like family; Region: SseC; pfam04888 331636002669 EamA-like transporter family; Region: EamA; cl01037 331636002670 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 331636002671 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 331636002672 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 331636002673 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 331636002674 active site 331636002675 dimer interface [polypeptide binding]; other site 331636002676 motif 1; other site 331636002677 motif 2; other site 331636002678 motif 3; other site 331636002679 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 331636002680 anticodon binding site; other site 331636002681 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 331636002682 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636002683 Uncharacterized protein family (UPF0137); Region: UPF0137; pfam03677 331636002684 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 331636002685 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 331636002686 active site 331636002687 HIGH motif; other site 331636002688 dimer interface [polypeptide binding]; other site 331636002689 KMSKS motif; other site 331636002690 excinuclease ABC subunit B; Provisional; Region: PRK05298 331636002691 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 331636002692 ATP binding site [chemical binding]; other site 331636002693 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 331636002694 nucleotide binding region [chemical binding]; other site 331636002695 ATP-binding site [chemical binding]; other site 331636002696 Ultra-violet resistance protein B; Region: UvrB; pfam12344 331636002697 UvrB/uvrC motif; Region: UVR; pfam02151 331636002698 enolase; Provisional; Region: eno; PRK00077 331636002699 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 331636002700 dimer interface [polypeptide binding]; other site 331636002701 metal binding site [ion binding]; metal-binding site 331636002702 substrate binding pocket [chemical binding]; other site 331636002703 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 331636002704 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 331636002705 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 331636002706 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 331636002707 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 331636002708 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 331636002709 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 331636002710 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 331636002711 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 331636002712 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 331636002713 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 331636002714 putative Iron-sulfur protein interface [polypeptide binding]; other site 331636002715 proximal heme binding site [chemical binding]; other site 331636002716 putative dimer interface [polypeptide binding]; other site 331636002717 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 331636002718 proximal heme binding site [chemical binding]; other site 331636002719 Iron-sulfur protein interface; other site 331636002720 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 331636002721 active site 331636002722 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 331636002723 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 331636002724 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 331636002725 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 331636002726 DsbD alpha interface [polypeptide binding]; other site 331636002727 catalytic residues [active] 331636002728 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 331636002729 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 331636002730 translocation protein TolB; Provisional; Region: tolB; PRK01029 331636002731 TolB amino-terminal domain; Region: TolB_N; cl00639 331636002732 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 331636002733 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 331636002734 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 331636002735 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 331636002736 ligand binding site [chemical binding]; other site 331636002737 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 331636002738 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 331636002739 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 331636002740 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 331636002741 dimer interface [polypeptide binding]; other site 331636002742 decamer (pentamer of dimers) interface [polypeptide binding]; other site 331636002743 catalytic triad [active] 331636002744 peroxidatic and resolving cysteines [active] 331636002745 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 331636002746 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 331636002747 ring oligomerisation interface [polypeptide binding]; other site 331636002748 ATP/Mg binding site [chemical binding]; other site 331636002749 stacking interactions; other site 331636002750 hinge regions; other site 331636002751 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 331636002752 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 331636002753 active site 331636002754 dimerization interface [polypeptide binding]; other site 331636002755 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 331636002756 ligand binding site [chemical binding]; other site 331636002757 active site 331636002758 UGI interface [polypeptide binding]; other site 331636002759 catalytic site [active] 331636002760 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 331636002761 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636002762 Family description; Region: UvrD_C_2; cl15862 331636002763 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 331636002764 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 331636002765 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 331636002766 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 331636002767 DNA topoisomerase I/SWI domain fusion protein; Validated; Region: PRK06319 331636002768 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 331636002769 active site 331636002770 interdomain interaction site; other site 331636002771 putative metal-binding site [ion binding]; other site 331636002772 nucleotide binding site [chemical binding]; other site 331636002773 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 331636002774 domain I; other site 331636002775 DNA binding groove [nucleotide binding] 331636002776 phosphate binding site [ion binding]; other site 331636002777 domain II; other site 331636002778 domain III; other site 331636002779 nucleotide binding site [chemical binding]; other site 331636002780 catalytic site [active] 331636002781 domain IV; other site 331636002782 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 331636002783 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 331636002784 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 331636002785 SWIB/MDM2 domain; Region: SWIB; cl02489 331636002786 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 331636002787 FMN binding site [chemical binding]; other site 331636002788 active site 331636002789 catalytic residues [active] 331636002790 substrate binding site [chemical binding]; other site 331636002791 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 331636002792 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 331636002793 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 331636002794 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 331636002795 protein RecA; Region: tigrfam_recA; TIGR02012 331636002796 hexamer interface [polypeptide binding]; other site 331636002797 Walker A motif; other site 331636002798 ATP binding site [chemical binding]; other site 331636002799 Walker B motif; other site 331636002800 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 331636002801 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 331636002802 GTP and metal dependent enzyme involved F420 coenzyme biosynthesis (catalyzes addition of two l-glutamates to F420 precursor) [Coenzyme transport and metabolism]; Region: COG1478 331636002803 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 331636002804 NADP+ binding site [chemical binding]; other site 331636002805 folate binding site [chemical binding]; other site 331636002806 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 331636002807 catalytic center binding site [active] 331636002808 ATP binding site [chemical binding]; other site 331636002809 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 331636002810 dihydropteroate synthase; Region: DHPS; TIGR01496 331636002811 substrate binding pocket [chemical binding]; other site 331636002812 dimer interface [polypeptide binding]; other site 331636002813 inhibitor binding site; inhibition site 331636002814 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 331636002815 active site 331636002816 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 331636002817 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 331636002818 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 331636002819 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 331636002820 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 331636002821 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 331636002822 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 331636002823 DNA binding residues [nucleotide binding] 331636002824 Uncharacterized protein family (UPF0242); Region: UPF0242; pfam06785 331636002825 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 331636002826 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 331636002827 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 331636002828 Family description; Region: UvrD_C_2; cl15862 331636002829 Protein of unknown function (DUF1347); Region: DUF1347; pfam07079 331636002830 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 331636002831 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 331636002832 DNA binding site [nucleotide binding] 331636002833 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 331636002834 putative trimer interface [polypeptide binding]; other site 331636002835 putative CoA binding site [chemical binding]; other site 331636002836 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 331636002837 substrate binding pocket [chemical binding]; other site 331636002838 chain length determination region; other site 331636002839 catalytic residues [active] 331636002840 aspartate-rich region 1; other site 331636002841 substrate-Mg2+ binding site; other site 331636002842 active site lid residues [active] 331636002843 Thymidylate synthase complementing protein; Region: Thy1; cl03630 331636002844 Thymidylate synthase complementing protein; Region: Thy1; cl03630