-- dump date 20140619_040258 -- class Genbank::misc_feature -- table misc_feature_note -- id note 227941000001 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 227941000002 dimer interface [polypeptide binding]; other site 227941000003 allosteric magnesium binding site [ion binding]; other site 227941000004 active site 227941000005 aspartate-rich active site metal binding site; other site 227941000006 Schiff base residues; other site 227941000007 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrA [Energy production and conversion]; Region: NqrA; COG1726 227941000008 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 227941000009 transcript cleavage factor/unknown domain fusion protein; Validated; Region: PRK06330 227941000010 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 227941000011 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 227941000012 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 227941000013 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 227941000014 pyridoxal 5'-phosphate binding site [chemical binding]; other site 227941000015 homodimer interface [polypeptide binding]; other site 227941000016 catalytic residue [active] 227941000017 rod shape-determining protein MreC; Provisional; Region: PRK14872 227941000018 rod shape-determining protein MreC; Region: MreC; pfam04085 227941000019 rod shape-determining protein MreC; Region: MreC; pfam04085 227941000020 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 227941000021 Part of AAA domain; Region: AAA_19; pfam13245 227941000022 Family description; Region: UvrD_C_2; pfam13538 227941000023 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 227941000024 Major Facilitator Superfamily; Region: MFS_1; pfam07690 227941000025 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 227941000026 putative substrate translocation pore; other site 227941000027 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 227941000028 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 227941000029 active site residue [active] 227941000030 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 227941000031 ribosomal protein S4, bacterial/organelle type; Region: rpsD_bact; TIGR01017 227941000032 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 227941000033 RNA binding surface [nucleotide binding]; other site 227941000034 endonuclease IV; Provisional; Region: PRK01060 227941000035 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 227941000036 AP (apurinic/apyrimidinic) site pocket; other site 227941000037 DNA interaction; other site 227941000038 Metal-binding active site; metal-binding site 227941000039 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 227941000040 MviN-like protein; Region: MVIN; pfam03023 227941000041 Fibrinogen alpha/beta chain family; Region: Fib_alpha; pfam08702 227941000042 Effector from type III secretion system; Region: Effector_1; pfam04518 227941000043 Effector from type III secretion system; Region: Effector_1; pfam04518 227941000044 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 227941000045 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 227941000046 Walker A/P-loop; other site 227941000047 ATP binding site [chemical binding]; other site 227941000048 Q-loop/lid; other site 227941000049 ABC transporter signature motif; other site 227941000050 Walker B; other site 227941000051 D-loop; other site 227941000052 H-loop/switch region; other site 227941000053 Protein of unknown function (DUF1137); Region: DUF1137; pfam06587 227941000054 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 227941000055 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 227941000056 hypothetical protein; Provisional; Region: PRK01064 227941000057 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 227941000058 G-X-X-G motif; other site 227941000059 DNA topoisomerase IV subunit A; Provisional; Region: PRK09630 227941000060 CAP-like domain; other site 227941000061 DNA gyrase/topoisomerase IV, subunit A; Region: DNA_topoisoIV; pfam00521 227941000062 active site 227941000063 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 227941000064 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 227941000065 ATP binding site [chemical binding]; other site 227941000066 Mg2+ binding site [ion binding]; other site 227941000067 G-X-G motif; other site 227941000068 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 227941000069 ATP binding site [chemical binding]; other site 227941000070 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 227941000071 active site 227941000072 putative metal-binding site [ion binding]; other site 227941000073 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 227941000074 glutamyl-tRNA reductase; Validated; Region: hemA; PRK00676 227941000075 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 227941000076 NAD(P) binding pocket [chemical binding]; other site 227941000077 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 227941000078 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 227941000079 phosphopeptide binding site; other site 227941000080 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 227941000081 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 227941000082 phosphopeptide binding site; other site 227941000083 BON domain; Region: BON; pfam04972 227941000084 type III secretion system ATPase; Provisional; Region: PRK06315 227941000085 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 227941000086 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 227941000087 Walker A motif/ATP binding site; other site 227941000088 Walker B motif; other site 227941000089 type III secretion system protein; Validated; Region: PRK05933 227941000090 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 227941000091 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 227941000092 Catalytic domain of Protein Kinases; Region: PKc; cd00180 227941000093 active site 227941000094 ATP binding site [chemical binding]; other site 227941000095 substrate binding site [chemical binding]; other site 227941000096 activation loop (A-loop); other site 227941000097 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 227941000098 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 227941000099 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 227941000100 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 227941000101 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 227941000102 Phosphagen (guanidino) kinases; Region: phosphagen_kinases; cl02823 227941000103 ADP binding site [chemical binding]; other site 227941000104 phosphagen binding site; other site 227941000105 substrate specificity loop; other site 227941000106 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 227941000107 UvrB/uvrC motif; Region: UVR; pfam02151 227941000108 ribosome recycling factor; Reviewed; Region: frr; PRK00083 227941000109 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 227941000110 hinge region; other site 227941000111 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 227941000112 putative nucleotide binding site [chemical binding]; other site 227941000113 uridine monophosphate binding site [chemical binding]; other site 227941000114 homohexameric interface [polypeptide binding]; other site 227941000115 elongation factor Ts; Provisional; Region: tsf; PRK09377 227941000116 UBA/TS-N domain; Region: UBA; pfam00627 227941000117 Elongation factor TS; Region: EF_TS; pfam00889 227941000118 Elongation factor TS; Region: EF_TS; pfam00889 227941000119 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 227941000120 rRNA interaction site [nucleotide binding]; other site 227941000121 S8 interaction site; other site 227941000122 putative laminin-1 binding site; other site 227941000123 Chlamydia major outer membrane protein; Region: Chlam_OMP; pfam01308 227941000124 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 227941000125 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 227941000126 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 227941000127 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 227941000128 TPR motif; other site 227941000129 binding surface 227941000130 Tetratricopeptide repeat; Region: TPR_12; pfam13424 227941000131 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 227941000132 binding surface 227941000133 TPR motif; other site 227941000134 TPR repeat; Region: TPR_11; pfam13414 227941000135 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 227941000136 binding surface 227941000137 TPR repeat; Region: TPR_11; pfam13414 227941000138 TPR motif; other site 227941000139 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 227941000140 putative ABC transporter; Region: ycf24; CHL00085 227941000141 FeS assembly ATPase SufC; Region: sufC; TIGR01978 227941000142 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 227941000143 Walker A/P-loop; other site 227941000144 ATP binding site [chemical binding]; other site 227941000145 Q-loop/lid; other site 227941000146 ABC transporter signature motif; other site 227941000147 Walker B; other site 227941000148 D-loop; other site 227941000149 H-loop/switch region; other site 227941000150 FeS assembly protein SufD; Region: sufD; TIGR01981 227941000151 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 227941000152 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 227941000153 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 227941000154 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 227941000155 catalytic residue [active] 227941000156 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 227941000157 putative active site [active] 227941000158 putative metal binding site [ion binding]; other site 227941000159 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 227941000160 ParB-like nuclease domain; Region: ParBc; pfam02195 227941000161 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 227941000162 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 227941000163 Walker A/P-loop; other site 227941000164 ATP binding site [chemical binding]; other site 227941000165 Q-loop/lid; other site 227941000166 ABC transporter signature motif; other site 227941000167 Walker B; other site 227941000168 D-loop; other site 227941000169 H-loop/switch region; other site 227941000170 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 227941000171 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 227941000172 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 227941000173 Walker A/P-loop; other site 227941000174 ATP binding site [chemical binding]; other site 227941000175 Q-loop/lid; other site 227941000176 ABC transporter signature motif; other site 227941000177 Walker B; other site 227941000178 D-loop; other site 227941000179 H-loop/switch region; other site 227941000180 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 227941000181 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 227941000182 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 227941000183 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 227941000184 Phosphoglycerate kinase; Region: PGK; pfam00162 227941000185 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 227941000186 substrate binding site [chemical binding]; other site 227941000187 hinge regions; other site 227941000188 ADP binding site [chemical binding]; other site 227941000189 catalytic site [active] 227941000190 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 227941000191 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 227941000192 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 227941000193 S-adenosylmethionine binding site [chemical binding]; other site 227941000194 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 227941000195 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 227941000196 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 227941000197 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 227941000198 ATP binding site [chemical binding]; other site 227941000199 Mg2+ binding site [ion binding]; other site 227941000200 G-X-G motif; other site 227941000201 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 227941000202 binding surface 227941000203 TPR motif; other site 227941000204 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 227941000205 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 227941000206 active site 227941000207 PHP Thumb interface [polypeptide binding]; other site 227941000208 metal binding site [ion binding]; metal-binding site 227941000209 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 227941000210 generic binding surface I; other site 227941000211 generic binding surface II; other site 227941000212 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 227941000213 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 227941000214 putative substrate translocation pore; other site 227941000215 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 227941000216 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 227941000217 dimer interface [polypeptide binding]; other site 227941000218 motif 1; other site 227941000219 active site 227941000220 motif 2; other site 227941000221 motif 3; other site 227941000222 Anticodon binding domain; Region: HGTP_anticodon; pfam03129 227941000223 anticodon binding site; other site 227941000224 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 227941000225 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 227941000226 dimer interface [polypeptide binding]; other site 227941000227 anticodon binding site; other site 227941000228 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 227941000229 homodimer interface [polypeptide binding]; other site 227941000230 motif 1; other site 227941000231 active site 227941000232 motif 2; other site 227941000233 GAD domain; Region: GAD; pfam02938 227941000234 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 227941000235 active site 227941000236 motif 3; other site 227941000237 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 227941000238 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 227941000239 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 227941000240 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 227941000241 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 227941000242 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 227941000243 catalytic residues [active] 227941000244 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 227941000245 Protein of unknown function (DUF2709); Region: DUF2709; pfam10915 227941000246 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; pfam02367 227941000247 DNA polymerase III subunit epsilon; Validated; Region: PRK06310 227941000248 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 227941000249 active site 227941000250 catalytic site [active] 227941000251 substrate binding site [chemical binding]; other site 227941000252 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 227941000253 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 227941000254 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 227941000255 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 227941000256 putative active site [active] 227941000257 catalytic triad [active] 227941000258 putative dimer interface [polypeptide binding]; other site 227941000259 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 227941000260 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 227941000261 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 227941000262 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 227941000263 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 227941000264 active site 227941000265 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 227941000266 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 227941000267 putative active site [active] 227941000268 substrate binding site [chemical binding]; other site 227941000269 putative cosubstrate binding site; other site 227941000270 catalytic site [active] 227941000271 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 227941000272 substrate binding site [chemical binding]; other site 227941000273 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 227941000274 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 227941000275 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 227941000276 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 227941000277 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 227941000278 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 227941000279 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 227941000280 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 227941000281 putative translocon binding site; other site 227941000282 protein-rRNA interface [nucleotide binding]; other site 227941000283 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 227941000284 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 227941000285 G-X-X-G motif; other site 227941000286 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 227941000287 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 227941000288 23S rRNA interface [nucleotide binding]; other site 227941000289 5S rRNA interface [nucleotide binding]; other site 227941000290 putative antibiotic binding site [chemical binding]; other site 227941000291 L25 interface [polypeptide binding]; other site 227941000292 L27 interface [polypeptide binding]; other site 227941000293 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 227941000294 23S rRNA interface [nucleotide binding]; other site 227941000295 putative translocon interaction site; other site 227941000296 signal recognition particle (SRP54) interaction site; other site 227941000297 L23 interface [polypeptide binding]; other site 227941000298 trigger factor interaction site; other site 227941000299 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 227941000300 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 227941000301 Ribosomal protein L24 [Translation, ribosomal structure and biogenesis]; Region: RplX; COG0198 227941000302 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 227941000303 RNA binding site [nucleotide binding]; other site 227941000304 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 227941000305 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 227941000306 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 227941000307 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 227941000308 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 227941000309 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 227941000310 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 227941000311 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 227941000312 5S rRNA interface [nucleotide binding]; other site 227941000313 L27 interface [polypeptide binding]; other site 227941000314 23S rRNA interface [nucleotide binding]; other site 227941000315 L5 interface [polypeptide binding]; other site 227941000316 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 227941000317 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 227941000318 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 227941000319 ribosomal protein L15, bacterial/organelle; Region: rplO_bact; TIGR01071 227941000320 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 227941000321 SecY translocase; Region: SecY; pfam00344 227941000322 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 227941000323 30S ribosomal protein S13; Region: bact_S13; TIGR03631 227941000324 30S ribosomal protein S11; Validated; Region: PRK05309 227941000325 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 227941000326 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 227941000327 alphaNTD - beta interaction site [polypeptide binding]; other site 227941000328 alphaNTD homodimer interface [polypeptide binding]; other site 227941000329 alphaNTD - beta' interaction site [polypeptide binding]; other site 227941000330 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 227941000331 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 227941000332 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 227941000333 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 227941000334 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 227941000335 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 227941000336 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 227941000337 active site 227941000338 putative DNA-binding cleft [nucleotide binding]; other site 227941000339 dimer interface [polypeptide binding]; other site 227941000340 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 227941000341 RuvA N terminal domain; Region: RuvA_N; pfam01330 227941000342 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 227941000343 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 227941000344 active site 227941000345 multimer interface [polypeptide binding]; other site 227941000346 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 227941000347 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 227941000348 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 227941000349 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 227941000350 replicative DNA helicase; Provisional; Region: PRK06321 227941000351 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 227941000352 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 227941000353 Walker A motif; other site 227941000354 ATP binding site [chemical binding]; other site 227941000355 Walker B motif; other site 227941000356 DNA binding loops [nucleotide binding] 227941000357 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 227941000358 TLC ATP/ADP transporter; Region: TLC; pfam03219 227941000359 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 227941000360 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 227941000361 tandem repeat interface [polypeptide binding]; other site 227941000362 oligomer interface [polypeptide binding]; other site 227941000363 active site residues [active] 227941000364 DNA polymerase I; Provisional; Region: PRK05755 227941000365 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 227941000366 active site 227941000367 metal binding site 1 [ion binding]; metal-binding site 227941000368 putative 5' ssDNA interaction site; other site 227941000369 metal binding site 3; metal-binding site 227941000370 metal binding site 2 [ion binding]; metal-binding site 227941000371 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 227941000372 putative DNA binding site [nucleotide binding]; other site 227941000373 putative metal binding site [ion binding]; other site 227941000374 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 227941000375 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 227941000376 active site 227941000377 DNA binding site [nucleotide binding] 227941000378 catalytic site [active] 227941000379 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 227941000380 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 227941000381 CoA-binding site [chemical binding]; other site 227941000382 ATP-binding [chemical binding]; other site 227941000383 transcription termination factor Rho; Provisional; Region: rho; PRK09376 227941000384 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 227941000385 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 227941000386 RNA binding site [nucleotide binding]; other site 227941000387 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 227941000388 multimer interface [polypeptide binding]; other site 227941000389 Walker A motif; other site 227941000390 ATP binding site [chemical binding]; other site 227941000391 Walker B motif; other site 227941000392 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 227941000393 active site 227941000394 glucose-1-phosphate adenylyltransferase; Region: glgC; TIGR02091 227941000395 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 227941000396 ligand binding site; other site 227941000397 oligomer interface; other site 227941000398 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 227941000399 dimer interface [polypeptide binding]; other site 227941000400 N-terminal domain interface [polypeptide binding]; other site 227941000401 sulfate 1 binding site; other site 227941000402 Deinococcus radiodurans DR1119 and related proteins, metallophosphatase domain; Region: MPP_DR1119; cd07393 227941000403 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 227941000404 putative active site [active] 227941000405 putative metal binding site [ion binding]; other site 227941000406 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 227941000407 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 227941000408 S-adenosylmethionine binding site [chemical binding]; other site 227941000409 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 227941000410 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 227941000411 substrate binding pocket [chemical binding]; other site 227941000412 membrane-bound complex binding site; other site 227941000413 hinge residues; other site 227941000414 ferrochelatase; Reviewed; Region: hemH; PRK00035 227941000415 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 227941000416 C-terminal domain interface [polypeptide binding]; other site 227941000417 active site 227941000418 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 227941000419 active site 227941000420 N-terminal domain interface [polypeptide binding]; other site 227941000421 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 227941000422 TPR motif; other site 227941000423 binding surface 227941000424 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 227941000425 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 227941000426 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 227941000427 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 227941000428 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 227941000429 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 227941000430 dimer interface [polypeptide binding]; other site 227941000431 conserved gate region; other site 227941000432 putative PBP binding loops; other site 227941000433 ABC-ATPase subunit interface; other site 227941000434 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 227941000435 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 227941000436 dimer interface [polypeptide binding]; other site 227941000437 conserved gate region; other site 227941000438 putative PBP binding loops; other site 227941000439 ABC-ATPase subunit interface; other site 227941000440 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 227941000441 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 227941000442 DNA binding site [nucleotide binding] 227941000443 active site 227941000444 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 227941000445 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 227941000446 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 227941000447 putative tRNA-binding site [nucleotide binding]; other site 227941000448 B3/4 domain; Region: B3_4; pfam03483 227941000449 tRNA synthetase B5 domain; Region: B5; pfam03484 227941000450 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 227941000451 dimer interface [polypeptide binding]; other site 227941000452 motif 1; other site 227941000453 motif 3; other site 227941000454 motif 2; other site 227941000455 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 227941000456 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 227941000457 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 227941000458 hypothetical protein; Provisional; Region: PRK14381 227941000459 Uncharacterized conserved protein [Function unknown]; Region: COG1723 227941000460 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 227941000461 Recombination protein O N terminal; Region: RecO_N; pfam11967 227941000462 Recombination protein O C terminal; Region: RecO_C; pfam02565 227941000463 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 227941000464 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cl00250 227941000465 30S subunit binding site; other site 227941000466 Response regulator receiver domain; Region: Response_reg; pfam00072 227941000467 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 227941000468 active site 227941000469 phosphorylation site [posttranslational modification] 227941000470 intermolecular recognition site; other site 227941000471 dimerization interface [polypeptide binding]; other site 227941000472 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 227941000473 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 227941000474 Walker A motif; other site 227941000475 ATP binding site [chemical binding]; other site 227941000476 Walker B motif; other site 227941000477 arginine finger; other site 227941000478 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 227941000479 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 227941000480 PAS domain; Region: PAS; smart00091 227941000481 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 227941000482 dimer interface [polypeptide binding]; other site 227941000483 phosphorylation site [posttranslational modification] 227941000484 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 227941000485 ATP binding site [chemical binding]; other site 227941000486 Mg2+ binding site [ion binding]; other site 227941000487 G-X-G motif; other site 227941000488 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 227941000489 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 227941000490 motif II; other site 227941000491 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 227941000492 substrate binding site; other site 227941000493 dimer interface; other site 227941000494 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 227941000495 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 227941000496 putative active site [active] 227941000497 putative metal binding site [ion binding]; other site 227941000498 SWIB/MDM2 domain; Region: SWIB; pfam02201 227941000499 peptide chain release factor 2; Validated; Region: prfB; PRK00578 227941000500 This domain is found in peptide chain release factors; Region: PCRF; smart00937 227941000501 RF-1 domain; Region: RF-1; pfam00472 227941000502 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 227941000503 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 227941000504 Coenzyme A binding pocket [chemical binding]; other site 227941000505 SprT-like family; Region: SprT-like; pfam10263 227941000506 DNA-binding regulatory protein, YebC/PmpR family; Region: TIGR01033 227941000507 Domain of Unknown Function (DUF1547); Region: DUF1547; pfam07577 227941000508 Domain of Unknown Function (DUF1547); Region: DUF1547; pfam07577 227941000509 Domain of Unknown Function (DUF1547); Region: DUF1547; pfam07577 227941000510 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 227941000511 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 227941000512 hinge; other site 227941000513 active site 227941000514 arginine-tRNA ligase; Region: PLN02286 227941000515 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 227941000516 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 227941000517 active site 227941000518 HIGH motif; other site 227941000519 KMSK motif region; other site 227941000520 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 227941000521 tRNA binding surface [nucleotide binding]; other site 227941000522 anticodon binding site; other site 227941000523 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 227941000524 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 227941000525 putative acyl-acceptor binding pocket; other site 227941000526 cytidylate kinase; Provisional; Region: cmk; PRK00023 227941000527 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 227941000528 CMP-binding site; other site 227941000529 The sites determining sugar specificity; other site 227941000530 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 227941000531 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 227941000532 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14840 227941000533 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 227941000534 catalytic residue [active] 227941000535 putative FPP diphosphate binding site; other site 227941000536 putative FPP binding hydrophobic cleft; other site 227941000537 dimer interface [polypeptide binding]; other site 227941000538 putative IPP diphosphate binding site; other site 227941000539 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK12911 227941000540 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 227941000541 Protein export membrane protein; Region: SecD_SecF; pfam02355 227941000542 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 227941000543 DHH family; Region: DHH; pfam01368 227941000544 DHHA1 domain; Region: DHHA1; pfam02272 227941000545 Chlamydia CHLPS protein (DUF818); Region: DUF818; pfam05677 227941000546 Helix-turn-helix domain; Region: HTH_17; pfam12728 227941000547 Helix-turn-helix domain; Region: HTH_17; pfam12728 227941000548 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 227941000549 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 227941000550 HIGH motif; other site 227941000551 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 227941000552 active site 227941000553 KMSKS motif; other site 227941000554 Chlamydia cysteine-rich outer membrane protein 3; Region: Chlam_OMP3; pfam03503 227941000555 Chlamydia cysteine-rich outer membrane protein 6; Region: Chlam_OMP6; pfam03504 227941000556 Domain of unknown function DUF11; Region: DUF11; pfam01345 227941000557 Domain of unknown function DUF11; Region: DUF11; pfam01345 227941000558 Chlamydia 15 kDa cysteine-rich outer membrane protein (CRPA); Region: CRPA; pfam05745 227941000559 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 227941000560 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 227941000561 protein binding site [polypeptide binding]; other site 227941000562 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 227941000563 Catalytic dyad [active] 227941000564 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 227941000565 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 227941000566 S17 interaction site [polypeptide binding]; other site 227941000567 S8 interaction site; other site 227941000568 16S rRNA interaction site [nucleotide binding]; other site 227941000569 streptomycin interaction site [chemical binding]; other site 227941000570 23S rRNA interaction site [nucleotide binding]; other site 227941000571 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 227941000572 30S ribosomal protein S7; Validated; Region: PRK05302 227941000573 elongation factor G; Reviewed; Region: PRK12739 227941000574 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 227941000575 G1 box; other site 227941000576 putative GEF interaction site [polypeptide binding]; other site 227941000577 GTP/Mg2+ binding site [chemical binding]; other site 227941000578 Switch I region; other site 227941000579 G2 box; other site 227941000580 G3 box; other site 227941000581 Switch II region; other site 227941000582 G4 box; other site 227941000583 G5 box; other site 227941000584 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 227941000585 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 227941000586 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 227941000587 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 227941000588 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 227941000589 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 227941000590 FAD binding pocket [chemical binding]; other site 227941000591 conserved FAD binding motif [chemical binding]; other site 227941000592 phosphate binding motif [ion binding]; other site 227941000593 beta-alpha-beta structure motif; other site 227941000594 NAD binding pocket [chemical binding]; other site 227941000595 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 227941000596 homotrimer interaction site [polypeptide binding]; other site 227941000597 zinc binding site [ion binding]; other site 227941000598 CDP-binding sites; other site 227941000599 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 227941000600 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 227941000601 GTPase CgtA; Reviewed; Region: obgE; PRK12299 227941000602 GTP1/OBG; Region: GTP1_OBG; pfam01018 227941000603 Obg GTPase; Region: Obg; cd01898 227941000604 G1 box; other site 227941000605 GTP/Mg2+ binding site [chemical binding]; other site 227941000606 Switch I region; other site 227941000607 G2 box; other site 227941000608 G3 box; other site 227941000609 Switch II region; other site 227941000610 G4 box; other site 227941000611 G5 box; other site 227941000612 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 227941000613 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 227941000614 dimer interface [polypeptide binding]; other site 227941000615 putative PBP binding regions; other site 227941000616 ABC-ATPase subunit interface; other site 227941000617 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 227941000618 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 227941000619 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 227941000620 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 227941000621 putative metal binding residues [ion binding]; other site 227941000622 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 227941000623 thiamine phosphate binding site [chemical binding]; other site 227941000624 active site 227941000625 pyrophosphate binding site [ion binding]; other site 227941000626 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 227941000627 substrate binding site [chemical binding]; other site 227941000628 multimerization interface [polypeptide binding]; other site 227941000629 ATP binding site [chemical binding]; other site 227941000630 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 227941000631 Autotransporter beta-domain; Region: Autotransporter; pfam03797 227941000632 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 227941000633 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 227941000634 Autotransporter beta-domain; Region: Autotransporter; pfam03797 227941000635 YtxH-like protein; Region: YtxH; pfam12732 227941000636 Serpentine type 7TM GPCR chemoreceptor Str; Region: 7TM_GPCR_Str; cl11517 227941000637 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 227941000638 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 227941000639 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 227941000640 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 227941000641 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]; Region: COG1327 227941000642 ATP cone domain; Region: ATP-cone; pfam03477 227941000643 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 227941000644 Lumazine binding domain; Region: Lum_binding; pfam00677 227941000645 Lumazine binding domain; Region: Lum_binding; pfam00677 227941000646 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 227941000647 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 227941000648 S-adenosylmethionine binding site [chemical binding]; other site 227941000649 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 227941000650 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 227941000651 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 227941000652 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 227941000653 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 227941000654 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 227941000655 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 227941000656 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 227941000657 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 227941000658 E3 interaction surface; other site 227941000659 lipoyl attachment site [posttranslational modification]; other site 227941000660 e3 binding domain; Region: E3_binding; pfam02817 227941000661 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 227941000662 KpsF/GutQ family protein; Region: kpsF; TIGR00393 227941000663 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 227941000664 putative active site [active] 227941000665 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 227941000666 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 227941000667 Putative zinc ribbon domain; Region: DUF164; pfam02591 227941000668 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 227941000669 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 227941000670 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 227941000671 active site 227941000672 serine hydroxymethyltransferase; Provisional; Region: PRK13580 227941000673 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 227941000674 dimer interface [polypeptide binding]; other site 227941000675 active site 227941000676 glycine-pyridoxal phosphate binding site [chemical binding]; other site 227941000677 folate binding site [chemical binding]; other site 227941000678 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 227941000679 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 227941000680 oligomer interface [polypeptide binding]; other site 227941000681 active site residues [active] 227941000682 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 227941000683 diaminopimelate epimerase; Region: DapF; TIGR00652 227941000684 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 227941000685 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 227941000686 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 227941000687 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 227941000688 S-adenosylmethionine binding site [chemical binding]; other site 227941000689 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 227941000690 hypothetical protein; Provisional; Region: PRK05926 227941000691 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 227941000692 FeS/SAM binding site; other site 227941000693 Protein of unknown function (DUF3604); Region: DUF3604; pfam12228 227941000694 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 227941000695 anti sigma factor interaction site; other site 227941000696 regulatory phosphorylation site [posttranslational modification]; other site 227941000697 FOG: CBS domain [General function prediction only]; Region: COG0517 227941000698 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 227941000699 Transporter associated domain; Region: CorC_HlyC; smart01091 227941000700 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 227941000701 Chlam_Verruc_Plancto small basic protein; Region: Chlam_Ver_rRNA; TIGR04137 227941000702 Uncharacterized conserved protein [Function unknown]; Region: COG2928 227941000703 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 227941000704 active site 227941000705 DNA binding site [nucleotide binding] 227941000706 Exoribonuclease R [Transcription]; Region: VacB; COG0557 227941000707 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 227941000708 RNA binding site [nucleotide binding]; other site 227941000709 RNB domain; Region: RNB; pfam00773 227941000710 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 227941000711 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 227941000712 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 227941000713 nucleotide binding site [chemical binding]; other site 227941000714 NEF interaction site [polypeptide binding]; other site 227941000715 SBD interface [polypeptide binding]; other site 227941000716 GrpE; Region: GrpE; pfam01025 227941000717 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 227941000718 dimer interface [polypeptide binding]; other site 227941000719 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 227941000720 Transcriptional regulator of heat shock gene [Transcription]; Region: HrcA; COG1420 227941000721 prolyl-tRNA synthetase; Provisional; Region: PRK09194 227941000722 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 227941000723 dimer interface [polypeptide binding]; other site 227941000724 motif 1; other site 227941000725 active site 227941000726 motif 2; other site 227941000727 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 227941000728 putative deacylase active site [active] 227941000729 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 227941000730 active site 227941000731 motif 3; other site 227941000732 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 227941000733 anticodon binding site; other site 227941000734 Domain of unknown function (DUF1870); Region: DUF1870; pfam08965 227941000735 hypothetical protein; Validated; Region: PRK00647 227941000736 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 227941000737 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 227941000738 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 227941000739 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 227941000740 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 227941000741 pyridoxal 5'-phosphate binding site [chemical binding]; other site 227941000742 homodimer interface [polypeptide binding]; other site 227941000743 catalytic residue [active] 227941000744 Protein of unknown function (DUF1207); Region: DUF1207; pfam06727 227941000745 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 227941000746 Uncharacterized protein family (UPF0160); Region: UPF0160; cl01749 227941000747 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 227941000748 nucleotide binding site/active site [active] 227941000749 HIT family signature motif; other site 227941000750 catalytic residue [active] 227941000751 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 227941000752 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 227941000753 Na binding site [ion binding]; other site 227941000754 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 227941000755 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 227941000756 Peptidase C65 Otubain; Region: Peptidase_C65; pfam10275 227941000757 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 227941000758 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 227941000759 substrate binding pocket [chemical binding]; other site 227941000760 membrane-bound complex binding site; other site 227941000761 hinge residues; other site 227941000762 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 227941000763 putative hydrolase; Provisional; Region: PRK02113 227941000764 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 227941000765 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 227941000766 HflX GTPase family; Region: HflX; cd01878 227941000767 G1 box; other site 227941000768 GTP/Mg2+ binding site [chemical binding]; other site 227941000769 Switch I region; other site 227941000770 G2 box; other site 227941000771 G3 box; other site 227941000772 Switch II region; other site 227941000773 G4 box; other site 227941000774 G5 box; other site 227941000775 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 227941000776 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 227941000777 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 227941000778 FeS/SAM binding site; other site 227941000779 glycogen branching enzyme; Provisional; Region: PRK05402 227941000780 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 227941000781 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 227941000782 active site 227941000783 catalytic site [active] 227941000784 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 227941000785 large tegument protein UL36; Provisional; Region: PHA03247 227941000786 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 227941000787 Autotransporter beta-domain; Region: Autotransporter; pfam03797 227941000788 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 227941000789 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 227941000790 Autotransporter beta-domain; Region: Autotransporter; pfam03797 227941000791 Hyphally regulated cell wall protein N-terminal; Region: Hyphal_reg_CWP; pfam11765 227941000792 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 227941000793 Autotransporter beta-domain; Region: Autotransporter; pfam03797 227941000794 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 227941000795 Autotransporter beta-domain; Region: Autotransporter; pfam03797 227941000796 Autotransporter beta-domain; Region: Autotransporter; pfam03797 227941000797 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 227941000798 Autotransporter beta-domain; Region: Autotransporter; pfam03797 227941000799 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 227941000800 Autotransporter beta-domain; Region: Autotransporter; pfam03797 227941000801 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 227941000802 Autotransporter beta-domain; Region: Autotransporter; pfam03797 227941000803 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 227941000804 Autotransporter beta-domain; Region: Autotransporter; pfam03797 227941000805 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 227941000806 Autotransporter beta-domain; Region: Autotransporter; pfam03797 227941000807 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 227941000808 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 227941000809 Autotransporter beta-domain; Region: Autotransporter; pfam03797 227941000810 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 227941000811 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 227941000812 Autotransporter beta-domain; Region: Autotransporter; pfam03797 227941000813 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 227941000814 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 227941000815 Autotransporter beta-domain; Region: Autotransporter; pfam03797 227941000816 Domain of unknown function (DUF378); Region: DUF378; cl00943 227941000817 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 227941000818 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 227941000819 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 227941000820 GatB domain; Region: GatB_Yqey; pfam02637 227941000821 ribonuclease HIII; Provisional; Region: PRK00996 227941000822 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 227941000823 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 227941000824 RNA/DNA hybrid binding site [nucleotide binding]; other site 227941000825 active site 227941000826 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 227941000827 Helix-turn-helix domain; Region: HTH_25; pfam13413 227941000828 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 227941000829 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 227941000830 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 227941000831 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 227941000832 catalytic residues [active] 227941000833 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 227941000834 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 227941000835 S-adenosylmethionine binding site [chemical binding]; other site 227941000836 Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]; Region: Dxs; COG1154 227941000837 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 227941000838 TPP-binding site; other site 227941000839 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 227941000840 PYR/PP interface [polypeptide binding]; other site 227941000841 dimer interface [polypeptide binding]; other site 227941000842 TPP binding site [chemical binding]; other site 227941000843 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 227941000844 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 227941000845 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 227941000846 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 227941000847 generic binding surface II; other site 227941000848 generic binding surface I; other site 227941000849 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 227941000850 triosephosphate isomerase; Provisional; Region: PRK14565 227941000851 substrate binding site [chemical binding]; other site 227941000852 dimer interface [polypeptide binding]; other site 227941000853 catalytic triad [active] 227941000854 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 227941000855 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 227941000856 active site 227941000857 catalytic residues [active] 227941000858 metal binding site [ion binding]; metal-binding site 227941000859 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 227941000860 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 227941000861 Maf-like protein; Region: Maf; pfam02545 227941000862 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 227941000863 active site 227941000864 dimer interface [polypeptide binding]; other site 227941000865 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 227941000866 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 227941000867 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 227941000868 ABC transporter; Region: ABC_tran_2; pfam12848 227941000869 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 227941000870 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 227941000871 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 227941000872 active site 227941000873 Int/Topo IB signature motif; other site 227941000874 ribonuclease Z; Region: RNase_Z; TIGR02651 227941000875 IncA protein; Region: IncA; pfam04156 227941000876 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 227941000877 Found in ATP-dependent protease La (LON); Region: LON; smart00464 227941000878 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 227941000879 Walker A motif; other site 227941000880 ATP binding site [chemical binding]; other site 227941000881 Walker B motif; other site 227941000882 arginine finger; other site 227941000883 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 227941000884 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 227941000885 Glycoprotease family; Region: Peptidase_M22; pfam00814 227941000886 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 227941000887 chaperone protein DnaJ; Provisional; Region: PRK14284 227941000888 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 227941000889 HSP70 interaction site [polypeptide binding]; other site 227941000890 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 227941000891 Zn binding sites [ion binding]; other site 227941000892 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 227941000893 dimer interface [polypeptide binding]; other site 227941000894 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 227941000895 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 227941000896 tetramer interface [polypeptide binding]; other site 227941000897 TPP-binding site [chemical binding]; other site 227941000898 heterodimer interface [polypeptide binding]; other site 227941000899 phosphorylation loop region [posttranslational modification] 227941000900 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 227941000901 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 227941000902 alpha subunit interface [polypeptide binding]; other site 227941000903 TPP binding site [chemical binding]; other site 227941000904 heterodimer interface [polypeptide binding]; other site 227941000905 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 227941000906 ADP-ribose binding site [chemical binding]; other site 227941000907 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 227941000908 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 227941000909 dimerization domain swap beta strand [polypeptide binding]; other site 227941000910 regulatory protein interface [polypeptide binding]; other site 227941000911 active site 227941000912 regulatory phosphorylation site [posttranslational modification]; other site 227941000913 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 227941000914 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 227941000915 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 227941000916 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 227941000917 hypothetical protein; Validated; Region: PRK00153 227941000918 DNA polymerase III subunits gamma and tau; Validated; Region: PRK06305 227941000919 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 227941000920 Walker A motif; other site 227941000921 ATP binding site [chemical binding]; other site 227941000922 Walker B motif; other site 227941000923 arginine finger; other site 227941000924 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 227941000925 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 227941000926 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 227941000927 Zn2+ binding site [ion binding]; other site 227941000928 Mg2+ binding site [ion binding]; other site 227941000929 porphobilinogen deaminase; Provisional; Region: PRK01066 227941000930 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 227941000931 domain interfaces; other site 227941000932 active site 227941000933 DNA repair protein RadA; Provisional; Region: PRK11823 227941000934 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 227941000935 Walker A motif/ATP binding site; other site 227941000936 ATP binding site [chemical binding]; other site 227941000937 Walker B motif; other site 227941000938 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 227941000939 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 227941000940 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 227941000941 dimerization interface [polypeptide binding]; other site 227941000942 active site 227941000943 metal binding site [ion binding]; metal-binding site 227941000944 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; cl00054 227941000945 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 227941000946 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 227941000947 active site 227941000948 substrate binding site [chemical binding]; other site 227941000949 metal binding site [ion binding]; metal-binding site 227941000950 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 227941000951 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 227941000952 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 227941000953 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 227941000954 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 227941000955 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 227941000956 trimer interface [polypeptide binding]; other site 227941000957 active site 227941000958 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 227941000959 active site 227941000960 phosphorylation site [posttranslational modification] 227941000961 Helix-turn-helix domain; Region: HTH_17; pfam12728 227941000962 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 227941000963 active site 227941000964 phosphorylation site [posttranslational modification] 227941000965 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 227941000966 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 227941000967 Ligand Binding Site [chemical binding]; other site 227941000968 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 227941000969 Clp amino terminal domain; Region: Clp_N; pfam02861 227941000970 Clp amino terminal domain; Region: Clp_N; pfam02861 227941000971 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 227941000972 Walker A motif; other site 227941000973 ATP binding site [chemical binding]; other site 227941000974 Walker B motif; other site 227941000975 arginine finger; other site 227941000976 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 227941000977 Walker A motif; other site 227941000978 ATP binding site [chemical binding]; other site 227941000979 Walker B motif; other site 227941000980 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 227941000981 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 227941000982 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 227941000983 PLD-like domain; Region: PLDc_2; pfam13091 227941000984 putative active site [active] 227941000985 catalytic site [active] 227941000986 Chlamydial GcvH-like protein upstream region protein; Region: near_not_gcvH; TIGR03076 227941000987 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 227941000988 lipoyl attachment site [posttranslational modification]; other site 227941000989 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK01061 227941000990 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrD [Energy production and conversion]; Region: NqrD; COG1347 227941000991 FMN-binding domain; Region: FMN_bind; cl01081 227941000992 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 227941000993 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK01024 227941000994 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 227941000995 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 227941000996 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 227941000997 DnaA N-terminal domain; Region: DnaA_N; pfam11638 227941000998 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 227941000999 Walker A motif; other site 227941001000 ATP binding site [chemical binding]; other site 227941001001 Walker B motif; other site 227941001002 arginine finger; other site 227941001003 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 227941001004 DnaA box-binding interface [nucleotide binding]; other site 227941001005 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 227941001006 TPR motif; other site 227941001007 binding surface 227941001008 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 227941001009 MraW methylase family; Region: Methyltransf_5; pfam01795 227941001010 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 227941001011 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 227941001012 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 227941001013 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 227941001014 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 227941001015 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 227941001016 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 227941001017 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 227941001018 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 227941001019 active site 227941001020 metal binding site [ion binding]; metal-binding site 227941001021 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 227941001022 IHF - DNA interface [nucleotide binding]; other site 227941001023 IHF dimer interface [polypeptide binding]; other site 227941001024 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 227941001025 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; pfam03255 227941001026 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 227941001027 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 227941001028 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 227941001029 Walker A/P-loop; other site 227941001030 ATP binding site [chemical binding]; other site 227941001031 Q-loop/lid; other site 227941001032 ABC transporter signature motif; other site 227941001033 Walker B; other site 227941001034 D-loop; other site 227941001035 H-loop/switch region; other site 227941001036 nucleosidase; Provisional; Region: PRK05634 227941001037 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 227941001038 DNA polymerase III subunit epsilon; Validated; Region: PRK06309 227941001039 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 227941001040 active site 227941001041 catalytic site [active] 227941001042 substrate binding site [chemical binding]; other site 227941001043 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 227941001044 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 227941001045 Flagellar biogenesis protein [Cell motility and secretion]; Region: FliO; COG3190 227941001046 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 227941001047 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 227941001048 active site 227941001049 motif I; other site 227941001050 motif II; other site 227941001051 enoyl-[acyl-carrier-protein] reductase; Region: PLN02730 227941001052 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 227941001053 NAD binding site [chemical binding]; other site 227941001054 homotetramer interface [polypeptide binding]; other site 227941001055 homodimer interface [polypeptide binding]; other site 227941001056 substrate binding site [chemical binding]; other site 227941001057 active site 227941001058 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 227941001059 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 227941001060 minor groove reading motif; other site 227941001061 helix-hairpin-helix signature motif; other site 227941001062 substrate binding pocket [chemical binding]; other site 227941001063 active site 227941001064 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 227941001065 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 227941001066 DNA binding and oxoG recognition site [nucleotide binding] 227941001067 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 227941001068 homodimer interface [polypeptide binding]; other site 227941001069 metal binding site [ion binding]; metal-binding site 227941001070 CAAX protease self-immunity; Region: Abi; pfam02517 227941001071 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 227941001072 ADP-ribose binding site [chemical binding]; other site 227941001073 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 227941001074 Protein phosphatase 2C; Region: PP2C; pfam00481 227941001075 active site 227941001076 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 227941001077 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 227941001078 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 227941001079 catalytic residue [active] 227941001080 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 227941001081 Domain of unknown function DUF21; Region: DUF21; pfam01595 227941001082 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 227941001083 Transporter associated domain; Region: CorC_HlyC; pfam03471 227941001084 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 227941001085 Domain of unknown function DUF21; Region: DUF21; pfam01595 227941001086 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 227941001087 Transporter associated domain; Region: CorC_HlyC; smart01091 227941001088 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 227941001089 trimer interface [polypeptide binding]; other site 227941001090 active site 227941001091 multidrug efflux protein; Reviewed; Region: PRK09579 227941001092 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 227941001093 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 227941001094 Walker A motif; other site 227941001095 ATP binding site [chemical binding]; other site 227941001096 Walker B motif; other site 227941001097 arginine finger; other site 227941001098 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 227941001099 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 227941001100 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 227941001101 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 227941001102 active site 227941001103 catalytic site [active] 227941001104 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 227941001105 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 227941001106 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 227941001107 dimer interface [polypeptide binding]; other site 227941001108 ssDNA binding site [nucleotide binding]; other site 227941001109 tetramer (dimer of dimers) interface [polypeptide binding]; other site 227941001110 multifunctional aminopeptidase A; Provisional; Region: PRK00913 227941001111 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 227941001112 interface (dimer of trimers) [polypeptide binding]; other site 227941001113 Substrate-binding/catalytic site; other site 227941001114 Zn-binding sites [ion binding]; other site 227941001115 Histone H1-like nucleoprotein HC2; Region: HC2; pfam07382 227941001116 hypothetical protein; Provisional; Region: PRK05907 227941001117 Predicted methyltransferases [General function prediction only]; Region: COG0313 227941001118 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 227941001119 putative SAM binding site [chemical binding]; other site 227941001120 homodimer interface [polypeptide binding]; other site 227941001121 coproporphyrinogen III oxidase; Provisional; Region: PRK06294 227941001122 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 227941001123 FeS/SAM binding site; other site 227941001124 HemN C-terminal domain; Region: HemN_C; pfam06969 227941001125 Protein of unknown function (DUF342); Region: DUF342; pfam03961 227941001126 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 227941001127 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 227941001128 TPP-binding site [chemical binding]; other site 227941001129 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 227941001130 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 227941001131 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 227941001132 E3 interaction surface; other site 227941001133 lipoyl attachment site [posttranslational modification]; other site 227941001134 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 227941001135 uncharacterized protein, YfiH family; Region: TIGR00726 227941001136 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 227941001137 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 227941001138 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Provisional; Region: PRK02048 227941001139 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 227941001140 ADP-ribose binding site [chemical binding]; other site 227941001141 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 227941001142 ADP-ribose binding site [chemical binding]; other site 227941001143 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 227941001144 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 227941001145 catalytic loop [active] 227941001146 iron binding site [ion binding]; other site 227941001147 type III secretion system protein; Validated; Region: PRK05910 227941001148 FHIPEP family; Region: FHIPEP; pfam00771 227941001149 RNA polymerase sigma factor sigma-28; Reviewed; Region: PRK05911 227941001150 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 227941001151 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 227941001152 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 227941001153 DNA binding residues [nucleotide binding] 227941001154 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 227941001155 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 227941001156 active site 227941001157 HIGH motif; other site 227941001158 dimer interface [polypeptide binding]; other site 227941001159 KMSKS motif; other site 227941001160 S4 RNA-binding domain; Region: S4; smart00363 227941001161 RNA binding surface [nucleotide binding]; other site 227941001162 6-phosphogluconate dehydrogenase (decarboxylating); Region: gnd; TIGR00873 227941001163 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 227941001164 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 227941001165 GTP-binding protein LepA; Provisional; Region: PRK05433 227941001166 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 227941001167 G1 box; other site 227941001168 putative GEF interaction site [polypeptide binding]; other site 227941001169 GTP/Mg2+ binding site [chemical binding]; other site 227941001170 Switch I region; other site 227941001171 G2 box; other site 227941001172 G3 box; other site 227941001173 Switch II region; other site 227941001174 G4 box; other site 227941001175 G5 box; other site 227941001176 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 227941001177 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 227941001178 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 227941001179 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 227941001180 ADP/ATP carrier protein family; Region: AAA; TIGR00769 227941001181 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 227941001182 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 227941001183 intersubunit interface [polypeptide binding]; other site 227941001184 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 227941001185 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 227941001186 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 227941001187 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 227941001188 ABC-ATPase subunit interface; other site 227941001189 dimer interface [polypeptide binding]; other site 227941001190 putative PBP binding regions; other site 227941001191 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 227941001192 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 227941001193 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 227941001194 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 227941001195 ABC-ATPase subunit interface; other site 227941001196 dimer interface [polypeptide binding]; other site 227941001197 putative PBP binding regions; other site 227941001198 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 227941001199 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 227941001200 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 227941001201 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 227941001202 RIP metalloprotease RseP; Region: TIGR00054 227941001203 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 227941001204 active site 227941001205 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 227941001206 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 227941001207 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 227941001208 putative substrate binding region [chemical binding]; other site 227941001209 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 227941001210 Putative serine esterase (DUF676); Region: DUF676; pfam05057 227941001211 recombination protein F; Reviewed; Region: recF; PRK00064 227941001212 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 227941001213 Walker A/P-loop; other site 227941001214 ATP binding site [chemical binding]; other site 227941001215 Q-loop/lid; other site 227941001216 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 227941001217 ABC transporter signature motif; other site 227941001218 Walker B; other site 227941001219 D-loop; other site 227941001220 H-loop/switch region; other site 227941001221 DNA polymerase III subunit beta; Validated; Region: PRK05643 227941001222 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 227941001223 putative DNA binding surface [nucleotide binding]; other site 227941001224 dimer interface [polypeptide binding]; other site 227941001225 beta-clamp/clamp loader binding surface; other site 227941001226 beta-clamp/translesion DNA polymerase binding surface; other site 227941001227 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 227941001228 SmpB-tmRNA interface; other site 227941001229 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 227941001230 ApbE family; Region: ApbE; pfam02424 227941001231 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14181 227941001232 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 227941001233 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 227941001234 homodimer interface [polypeptide binding]; other site 227941001235 NADP binding site [chemical binding]; other site 227941001236 substrate binding site [chemical binding]; other site 227941001237 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 227941001238 PLD-like domain; Region: PLDc_2; pfam13091 227941001239 putative active site [active] 227941001240 catalytic site [active] 227941001241 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 227941001242 PLD-like domain; Region: PLDc_2; pfam13091 227941001243 putative active site [active] 227941001244 catalytic site [active] 227941001245 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 227941001246 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 227941001247 4-alpha-glucanotransferase; Region: Glyco_hydro_77; pfam02446 227941001248 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 227941001249 type III secretion regulator YopN/LcrE/InvE/MxiC; Region: LcrE; TIGR02568 227941001250 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 227941001251 FHIPEP family; Region: FHIPEP; pfam00771 227941001252 type III secretion system protein; Validated; Region: PRK06298 227941001253 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 227941001254 GTP-binding protein YchF; Reviewed; Region: PRK09601 227941001255 YchF GTPase; Region: YchF; cd01900 227941001256 G1 box; other site 227941001257 GTP/Mg2+ binding site [chemical binding]; other site 227941001258 Switch I region; other site 227941001259 G2 box; other site 227941001260 Switch II region; other site 227941001261 G3 box; other site 227941001262 G4 box; other site 227941001263 G5 box; other site 227941001264 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 227941001265 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 227941001266 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 227941001267 active site 227941001268 Riboflavin kinase; Region: Flavokinase; smart00904 227941001269 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 227941001270 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 227941001271 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 227941001272 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 227941001273 G1 box; other site 227941001274 putative GEF interaction site [polypeptide binding]; other site 227941001275 GTP/Mg2+ binding site [chemical binding]; other site 227941001276 Switch I region; other site 227941001277 G2 box; other site 227941001278 G3 box; other site 227941001279 Switch II region; other site 227941001280 G4 box; other site 227941001281 G5 box; other site 227941001282 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 227941001283 Translation-initiation factor 2; Region: IF-2; pfam11987 227941001284 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 227941001285 transcription termination factor NusA; Region: NusA; TIGR01953 227941001286 NusA N-terminal domain; Region: NusA_N; pfam08529 227941001287 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 227941001288 RNA binding site [nucleotide binding]; other site 227941001289 homodimer interface [polypeptide binding]; other site 227941001290 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 227941001291 G-X-X-G motif; other site 227941001292 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 227941001293 G-X-X-G motif; other site 227941001294 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 227941001295 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 227941001296 RNA binding site [nucleotide binding]; other site 227941001297 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 227941001298 RNA binding site [nucleotide binding]; other site 227941001299 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 227941001300 RNA binding site [nucleotide binding]; other site 227941001301 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 227941001302 RNA binding site [nucleotide binding]; other site 227941001303 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 227941001304 RNA binding site [nucleotide binding]; other site 227941001305 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 227941001306 RNA binding site [nucleotide binding]; other site 227941001307 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 227941001308 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 227941001309 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 227941001310 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 227941001311 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 227941001312 putative inner membrane protein translocase component YidC; Provisional; Region: PRK01001 227941001313 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 227941001314 chromosomal replication initiation protein; Provisional; Region: PRK12422 227941001315 DnaA N-terminal domain; Region: DnaA_N; pfam11638 227941001316 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 227941001317 Walker A motif; other site 227941001318 ATP binding site [chemical binding]; other site 227941001319 Walker B motif; other site 227941001320 arginine finger; other site 227941001321 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 227941001322 DnaA box-binding interface [nucleotide binding]; other site 227941001323 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 227941001324 homodimer interface [polypeptide binding]; other site 227941001325 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 227941001326 active site pocket [active] 227941001327 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 227941001328 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 227941001329 E3 interaction surface; other site 227941001330 lipoyl attachment site [posttranslational modification]; other site 227941001331 e3 binding domain; Region: E3_binding; pfam02817 227941001332 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 227941001333 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 227941001334 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 227941001335 alpha subunit interface [polypeptide binding]; other site 227941001336 TPP binding site [chemical binding]; other site 227941001337 heterodimer interface [polypeptide binding]; other site 227941001338 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 227941001339 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 227941001340 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 227941001341 tetramer interface [polypeptide binding]; other site 227941001342 TPP-binding site [chemical binding]; other site 227941001343 heterodimer interface [polypeptide binding]; other site 227941001344 phosphorylation loop region [posttranslational modification] 227941001345 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 227941001346 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 227941001347 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 227941001348 trimer interface [polypeptide binding]; other site 227941001349 active site 227941001350 UDP-GlcNAc binding site [chemical binding]; other site 227941001351 lipid binding site [chemical binding]; lipid-binding site 227941001352 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 227941001353 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 227941001354 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 227941001355 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 227941001356 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 227941001357 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 227941001358 Surface antigen; Region: Bac_surface_Ag; pfam01103 227941001359 recombination protein RecR; Reviewed; Region: recR; PRK00076 227941001360 Y-family of DNA polymerases; Region: PolY; cl12025 227941001361 DNA binding site [nucleotide binding] 227941001362 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 227941001363 putative active site [active] 227941001364 putative metal-binding site [ion binding]; other site 227941001365 tetramer interface [polypeptide binding]; other site 227941001366 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 227941001367 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 227941001368 dimer interface [polypeptide binding]; other site 227941001369 active site 227941001370 CoA binding pocket [chemical binding]; other site 227941001371 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 227941001372 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 227941001373 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 227941001374 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 227941001375 NAD(P) binding site [chemical binding]; other site 227941001376 homotetramer interface [polypeptide binding]; other site 227941001377 homodimer interface [polypeptide binding]; other site 227941001378 active site 227941001379 acyl carrier protein; Provisional; Region: acpP; PRK00982 227941001380 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 227941001381 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 227941001382 ligand binding site [chemical binding]; other site 227941001383 flexible hinge region; other site 227941001384 Na+-dependent transporters of the SNF family [General function prediction only]; Region: COG0733 227941001385 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 227941001386 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 227941001387 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 227941001388 MgtE intracellular N domain; Region: MgtE_N; pfam03448 227941001389 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 227941001390 Divalent cation transporter; Region: MgtE; pfam01769 227941001391 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 227941001392 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 227941001393 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 227941001394 putative active site; other site 227941001395 catalytic residue [active] 227941001396 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 227941001397 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 227941001398 Walker A/P-loop; other site 227941001399 ATP binding site [chemical binding]; other site 227941001400 Q-loop/lid; other site 227941001401 ABC transporter signature motif; other site 227941001402 Walker B; other site 227941001403 D-loop; other site 227941001404 H-loop/switch region; other site 227941001405 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 227941001406 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 227941001407 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 227941001408 Protein of unknown function (DUF721); Region: DUF721; pfam05258 227941001409 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 227941001410 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 227941001411 ATP binding site [chemical binding]; other site 227941001412 Mg2+ binding site [ion binding]; other site 227941001413 G-X-G motif; other site 227941001414 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 227941001415 anchoring element; other site 227941001416 dimer interface [polypeptide binding]; other site 227941001417 ATP binding site [chemical binding]; other site 227941001418 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 227941001419 active site 227941001420 putative metal-binding site [ion binding]; other site 227941001421 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 227941001422 DNA gyrase, A subunit; Region: gyrA; TIGR01063 227941001423 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 227941001424 CAP-like domain; other site 227941001425 active site 227941001426 primary dimer interface [polypeptide binding]; other site 227941001427 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 227941001428 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 227941001429 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 227941001430 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 227941001431 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 227941001432 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 227941001433 thymidylate kinase; Validated; Region: tmk; PRK00698 227941001434 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 227941001435 TMP-binding site; other site 227941001436 ATP-binding site [chemical binding]; other site 227941001437 DNA polymerase III subunit delta'; Validated; Region: PRK05917 227941001438 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 227941001439 Serine hydrolase (FSH1); Region: FSH1; pfam03959 227941001440 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 227941001441 Pathogenicity locus; Region: Cdd1; pfam11731 227941001442 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 227941001443 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 227941001444 active site 227941001445 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 227941001446 prenyltransferase; Reviewed; Region: ubiA; PRK12876 227941001447 UbiA prenyltransferase family; Region: UbiA; pfam01040 227941001448 aromatic acid decarboxylase; Validated; Region: PRK05920 227941001449 Flavoprotein; Region: Flavoprotein; pfam02441 227941001450 Uncharacterized conserved protein [Function unknown]; Region: COG1284 227941001451 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 227941001452 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 227941001453 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 227941001454 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 227941001455 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 227941001456 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 227941001457 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 227941001458 Ligand Binding Site [chemical binding]; other site 227941001459 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 227941001460 SEC-C motif; Region: SEC-C; pfam02810 227941001461 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 227941001462 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 227941001463 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 227941001464 FeS/SAM binding site; other site 227941001465 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 227941001466 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 227941001467 FtsX-like permease family; Region: FtsX; pfam02687 227941001468 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 227941001469 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 227941001470 Walker A/P-loop; other site 227941001471 ATP binding site [chemical binding]; other site 227941001472 Q-loop/lid; other site 227941001473 ABC transporter signature motif; other site 227941001474 Walker B; other site 227941001475 D-loop; other site 227941001476 H-loop/switch region; other site 227941001477 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 227941001478 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 227941001479 23S rRNA interface [nucleotide binding]; other site 227941001480 L3 interface [polypeptide binding]; other site 227941001481 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 227941001482 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 227941001483 NlpC/P60 family; Region: NLPC_P60; cl17555 227941001484 adenylate kinase; Reviewed; Region: adk; PRK00279 227941001485 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 227941001486 AMP-binding site [chemical binding]; other site 227941001487 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 227941001488 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 227941001489 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 227941001490 putative active site [active] 227941001491 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 227941001492 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 227941001493 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 227941001494 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 227941001495 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 227941001496 peptide binding site [polypeptide binding]; other site 227941001497 UGMP family protein; Validated; Region: PRK09604 227941001498 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 227941001499 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 227941001500 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 227941001501 arginine repressor; Region: argR_whole; TIGR01529 227941001502 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 227941001503 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 227941001504 dimer interface [polypeptide binding]; other site 227941001505 conserved gate region; other site 227941001506 putative PBP binding loops; other site 227941001507 ABC-ATPase subunit interface; other site 227941001508 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 227941001509 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 227941001510 Walker A/P-loop; other site 227941001511 ATP binding site [chemical binding]; other site 227941001512 Q-loop/lid; other site 227941001513 ABC transporter signature motif; other site 227941001514 Walker B; other site 227941001515 D-loop; other site 227941001516 H-loop/switch region; other site 227941001517 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 227941001518 Uncharacterized protein conserved in archaea (DUF2250); Region: DUF2250; pfam10007 227941001519 Methyltransferase domain; Region: Methyltransf_31; pfam13847 227941001520 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 227941001521 S-adenosylmethionine binding site [chemical binding]; other site 227941001522 IncA protein; Region: IncA; pfam04156 227941001523 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 227941001524 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 227941001525 substrate binding site [chemical binding]; other site 227941001526 hexamer interface [polypeptide binding]; other site 227941001527 metal binding site [ion binding]; metal-binding site 227941001528 elongation factor P; Provisional; Region: PRK12426 227941001529 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 227941001530 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 227941001531 RNA binding site [nucleotide binding]; other site 227941001532 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 227941001533 RNA binding site [nucleotide binding]; other site 227941001534 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 227941001535 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 227941001536 carboxyltransferase (CT) interaction site; other site 227941001537 biotinylation site [posttranslational modification]; other site 227941001538 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 227941001539 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 227941001540 ATP-grasp domain; Region: ATP-grasp_4; cl17255 227941001541 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 227941001542 Family of unknown function (DUF648); Region: DUF648; pfam04890 227941001543 Family of unknown function (DUF648); Region: DUF648; pfam04890 227941001544 TcdB toxin N-terminal helical domain; Region: TcdB_N; pfam12918 227941001545 TcdA/TcdB catalytic glycosyltransferase domain; Region: TcdA_TcdB; pfam12919 227941001546 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 227941001547 Yersinia/Haemophilus virulence surface antigen; Region: Peptidase_C58; cl04145 227941001548 Protein of unknown function (DUF3491); Region: DUF3491; pfam11996 227941001549 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 227941001550 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 227941001551 pyridoxal 5'-phosphate binding site [chemical binding]; other site 227941001552 catalytic residue [active] 227941001553 Protein of unknown function (DUF687); Region: DUF687; pfam05095 227941001554 Trp operon repressor; Provisional; Region: PRK01381 227941001555 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 227941001556 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 227941001557 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 227941001558 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 227941001559 active site 227941001560 ribulose/triose binding site [chemical binding]; other site 227941001561 phosphate binding site [ion binding]; other site 227941001562 substrate (anthranilate) binding pocket [chemical binding]; other site 227941001563 product (indole) binding pocket [chemical binding]; other site 227941001564 phosphoribosylanthranilate isomerase; Region: PLN02363 227941001565 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 227941001566 active site 227941001567 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 227941001568 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 227941001569 pyridoxal 5'-phosphate binding site [chemical binding]; other site 227941001570 catalytic residue [active] 227941001571 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 227941001572 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 227941001573 substrate binding site [chemical binding]; other site 227941001574 active site 227941001575 catalytic residues [active] 227941001576 heterodimer interface [polypeptide binding]; other site 227941001577 kynureninase; Region: kynureninase; TIGR01814 227941001578 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 227941001579 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 227941001580 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 227941001581 catalytic residue [active] 227941001582 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 227941001583 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 227941001584 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 227941001585 active site 227941001586 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 227941001587 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 227941001588 active site 227941001589 GMP synthase; Reviewed; Region: guaA; PRK00074 227941001590 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 227941001591 AMP/PPi binding site [chemical binding]; other site 227941001592 candidate oxyanion hole; other site 227941001593 catalytic triad [active] 227941001594 potential glutamine specificity residues [chemical binding]; other site 227941001595 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 227941001596 ATP Binding subdomain [chemical binding]; other site 227941001597 Ligand Binding sites [chemical binding]; other site 227941001598 Dimerization subdomain; other site 227941001599 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK06843 227941001600 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 227941001601 active site 227941001602 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 227941001603 putative active site pocket [active] 227941001604 dimerization interface [polypeptide binding]; other site 227941001605 putative catalytic residue [active] 227941001606 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 227941001607 queuine tRNA-ribosyltransferase; Provisional; Region: PRK01008 227941001608 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 227941001609 putative disulfide oxidoreductase; Provisional; Region: PRK00611 227941001610 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 227941001611 Thioredoxin; Region: Thioredoxin_4; cl17273 227941001612 Vitamin K epoxide reductase (VKOR) family; Region: VKOR; cl01729 227941001613 putative active site [active] 227941001614 redox center [active] 227941001615 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 227941001616 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 227941001617 Walker A/P-loop; other site 227941001618 ATP binding site [chemical binding]; other site 227941001619 Q-loop/lid; other site 227941001620 ABC transporter signature motif; other site 227941001621 Walker B; other site 227941001622 D-loop; other site 227941001623 H-loop/switch region; other site 227941001624 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 227941001625 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 227941001626 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 227941001627 Ligand binding site; other site 227941001628 oligomer interface; other site 227941001629 CTP synthetase; Validated; Region: pyrG; PRK05380 227941001630 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 227941001631 Catalytic site [active] 227941001632 active site 227941001633 UTP binding site [chemical binding]; other site 227941001634 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 227941001635 active site 227941001636 putative oxyanion hole; other site 227941001637 catalytic triad [active] 227941001638 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]; Region: COG0816 227941001639 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 227941001640 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 227941001641 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 227941001642 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 227941001643 peptide binding site [polypeptide binding]; other site 227941001644 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 227941001645 peptide binding site [polypeptide binding]; other site 227941001646 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 227941001647 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 227941001648 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 227941001649 dimer interface [polypeptide binding]; other site 227941001650 conserved gate region; other site 227941001651 putative PBP binding loops; other site 227941001652 ABC-ATPase subunit interface; other site 227941001653 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 227941001654 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 227941001655 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 227941001656 dimer interface [polypeptide binding]; other site 227941001657 conserved gate region; other site 227941001658 putative PBP binding loops; other site 227941001659 ABC-ATPase subunit interface; other site 227941001660 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 227941001661 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 227941001662 Walker A/P-loop; other site 227941001663 ATP binding site [chemical binding]; other site 227941001664 Q-loop/lid; other site 227941001665 ABC transporter signature motif; other site 227941001666 Walker B; other site 227941001667 D-loop; other site 227941001668 H-loop/switch region; other site 227941001669 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 227941001670 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 227941001671 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 227941001672 Walker A/P-loop; other site 227941001673 ATP binding site [chemical binding]; other site 227941001674 Q-loop/lid; other site 227941001675 ABC transporter signature motif; other site 227941001676 Walker B; other site 227941001677 D-loop; other site 227941001678 H-loop/switch region; other site 227941001679 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 227941001680 Protein of unknown function (DUF1186); Region: DUF1186; pfam06685 227941001681 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 227941001682 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 227941001683 transmembrane helices; other site 227941001684 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK07085 227941001685 pyrophosphate-dependent phosphofructokinase; Region: PLN02251 227941001686 active site 227941001687 ADP/pyrophosphate binding site [chemical binding]; other site 227941001688 dimerization interface [polypeptide binding]; other site 227941001689 allosteric effector site; other site 227941001690 fructose-1,6-bisphosphate binding site; other site 227941001691 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 227941001692 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 227941001693 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 227941001694 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK07085 227941001695 pyrophosphate-dependent phosphofructokinase; Region: PLN02251 227941001696 active site 227941001697 ADP/pyrophosphate binding site [chemical binding]; other site 227941001698 dimerization interface [polypeptide binding]; other site 227941001699 allosteric effector site; other site 227941001700 fructose-1,6-bisphosphate binding site; other site 227941001701 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 227941001702 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 227941001703 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 227941001704 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 227941001705 HIGH motif; other site 227941001706 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 227941001707 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 227941001708 active site 227941001709 KMSKS motif; other site 227941001710 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 227941001711 tRNA binding surface [nucleotide binding]; other site 227941001712 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 227941001713 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 227941001714 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 227941001715 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 227941001716 phenol 2-monooxygenase; Provisional; Region: PRK08294 227941001717 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 227941001718 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 227941001719 nucleotide binding pocket [chemical binding]; other site 227941001720 K-X-D-G motif; other site 227941001721 catalytic site [active] 227941001722 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 227941001723 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 227941001724 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 227941001725 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 227941001726 Dimer interface [polypeptide binding]; other site 227941001727 BRCT sequence motif; other site 227941001728 Catalytic domain of Protein Kinases; Region: PKc; cd00180 227941001729 active site 227941001730 ATP binding site [chemical binding]; other site 227941001731 substrate binding site [chemical binding]; other site 227941001732 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 227941001733 activation loop (A-loop); other site 227941001734 Uncharacterized conserved protein [Function unknown]; Region: COG1262 227941001735 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 227941001736 IncA protein; Region: IncA; pfam04156 227941001737 IncA protein; Region: IncA; pfam04156 227941001738 Uncharacterized conserved protein [Function unknown]; Region: COG2912 227941001739 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 227941001740 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 227941001741 TPR motif; other site 227941001742 binding surface 227941001743 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 227941001744 Autotransporter beta-domain; Region: Autotransporter; pfam03797 227941001745 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 227941001746 Clp amino terminal domain; Region: Clp_N; pfam02861 227941001747 Clp amino terminal domain; Region: Clp_N; pfam02861 227941001748 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 227941001749 Walker A motif; other site 227941001750 ATP binding site [chemical binding]; other site 227941001751 Walker B motif; other site 227941001752 arginine finger; other site 227941001753 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 227941001754 Walker A motif; other site 227941001755 ATP binding site [chemical binding]; other site 227941001756 Walker B motif; other site 227941001757 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 227941001758 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 227941001759 mce related protein; Region: MCE; pfam02470 227941001760 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 227941001761 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 227941001762 Walker A/P-loop; other site 227941001763 ATP binding site [chemical binding]; other site 227941001764 Q-loop/lid; other site 227941001765 ABC transporter signature motif; other site 227941001766 Walker B; other site 227941001767 D-loop; other site 227941001768 H-loop/switch region; other site 227941001769 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 227941001770 Permease; Region: Permease; pfam02405 227941001771 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00615 227941001772 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 227941001773 inhibitor-cofactor binding pocket; inhibition site 227941001774 pyridoxal 5'-phosphate binding site [chemical binding]; other site 227941001775 catalytic residue [active] 227941001776 hypothetical protein; Validated; Region: PRK00228 227941001777 Uncharacterized conserved protein [Function unknown]; Region: COG1259 227941001778 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 227941001779 tetramer (dimer of dimers) interface [polypeptide binding]; other site 227941001780 active site 227941001781 dimer interface [polypeptide binding]; other site 227941001782 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 227941001783 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 227941001784 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 227941001785 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 227941001786 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 227941001787 Uncharacterized conserved protein [Function unknown]; Region: COG0327 227941001788 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 227941001789 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 227941001790 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 227941001791 active site 227941001792 Zn binding site [ion binding]; other site 227941001793 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 227941001794 oligomerisation interface [polypeptide binding]; other site 227941001795 mobile loop; other site 227941001796 roof hairpin; other site 227941001797 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 227941001798 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 227941001799 ring oligomerisation interface [polypeptide binding]; other site 227941001800 ATP/Mg binding site [chemical binding]; other site 227941001801 stacking interactions; other site 227941001802 hinge regions; other site 227941001803 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 227941001804 conserved cys residue [active] 227941001805 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 227941001806 AAA domain; Region: AAA_30; pfam13604 227941001807 Family description; Region: UvrD_C_2; pfam13538 227941001808 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 227941001809 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 227941001810 active site 227941001811 HIGH motif; other site 227941001812 KMSKS motif; other site 227941001813 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 227941001814 tRNA binding surface [nucleotide binding]; other site 227941001815 anticodon binding site; other site 227941001816 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 227941001817 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 227941001818 catalytic site [active] 227941001819 G-X2-G-X-G-K; other site 227941001820 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 227941001821 RNA/DNA hybrid binding site [nucleotide binding]; other site 227941001822 active site 227941001823 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 227941001824 tRNA (guanine-N(1)-)-methyltransferase/unknown domain fusion protein; Reviewed; Region: trmD; PRK01037 227941001825 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 227941001826 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 227941001827 active site 227941001828 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14522 227941001829 signal recognition particle protein; Provisional; Region: PRK10867 227941001830 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 227941001831 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 227941001832 P loop; other site 227941001833 GTP binding site [chemical binding]; other site 227941001834 Signal peptide binding domain; Region: SRP_SPB; pfam02978 227941001835 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 227941001836 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 227941001837 S-adenosylmethionine binding site [chemical binding]; other site 227941001838 peptide chain release factor 1; Validated; Region: prfA; PRK00591 227941001839 PCRF domain; Region: PCRF; pfam03462 227941001840 RF-1 domain; Region: RF-1; pfam00472 227941001841 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 227941001842 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 227941001843 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 227941001844 Catalytic site [active] 227941001845 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 227941001846 Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: IleS; COG0060 227941001847 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 227941001848 HIGH motif; other site 227941001849 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 227941001850 active site 227941001851 KMSKS motif; other site 227941001852 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 227941001853 tRNA binding surface [nucleotide binding]; other site 227941001854 anticodon binding site; other site 227941001855 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 227941001856 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 227941001857 putative active site [active] 227941001858 PhoH-like protein; Region: PhoH; pfam02562 227941001859 Bacterial SH3 domain homologues; Region: SH3b; smart00287 227941001860 Bacterial SH3 domain homologues; Region: SH3b; smart00287 227941001861 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 227941001862 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 227941001863 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 227941001864 Uncharacterized conserved protein [Function unknown]; Region: COG1624 227941001865 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 227941001866 lipid A biosynthesis lauroyl acyltransferase; Provisional; Region: PRK05906 227941001867 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 227941001868 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 227941001869 putative acyl-acceptor binding pocket; other site 227941001870 pyruvate kinase; Provisional; Region: PRK05826 227941001871 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 227941001872 domain interfaces; other site 227941001873 active site 227941001874 excinuclease ABC subunit A; Provisional; Region: PRK00635 227941001875 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 227941001876 Walker A/P-loop; other site 227941001877 ATP binding site [chemical binding]; other site 227941001878 Q-loop/lid; other site 227941001879 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 227941001880 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 227941001881 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 227941001882 Walker A/P-loop; other site 227941001883 ATP binding site [chemical binding]; other site 227941001884 Q-loop/lid; other site 227941001885 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 227941001886 ABC transporter signature motif; other site 227941001887 Walker B; other site 227941001888 D-loop; other site 227941001889 H-loop/switch region; other site 227941001890 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 227941001891 Walker A/P-loop; other site 227941001892 ATP binding site [chemical binding]; other site 227941001893 Q-loop/lid; other site 227941001894 ABC transporter signature motif; other site 227941001895 Walker B; other site 227941001896 D-loop; other site 227941001897 H-loop/switch region; other site 227941001898 serine/threonine-protein kinase; Reviewed; Region: pknD; PRK13184 227941001899 Catalytic domain of Protein Kinases; Region: PKc; cd00180 227941001900 active site 227941001901 ATP binding site [chemical binding]; other site 227941001902 substrate binding site [chemical binding]; other site 227941001903 activation loop (A-loop); other site 227941001904 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 227941001905 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 227941001906 HIGH motif; other site 227941001907 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 227941001908 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 227941001909 active site 227941001910 KMSKS motif; other site 227941001911 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 227941001912 tRNA binding surface [nucleotide binding]; other site 227941001913 anticodon binding site; other site 227941001914 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 227941001915 V-type ATP synthase subunit K; Provisional; Region: PRK09621 227941001916 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 227941001917 V-type ATP synthase subunit I; Validated; Region: PRK05771 227941001918 V-type ATP synthase subunit D; Provisional; Region: PRK02195 227941001919 V-type ATP synthase subunit B; Provisional; Region: PRK02118 227941001920 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 227941001921 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 227941001922 Walker A motif homologous position; other site 227941001923 Walker B motif; other site 227941001924 V-type ATP synthase subunit A; Provisional; Region: PRK04192 227941001925 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 227941001926 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 227941001927 Walker A motif/ATP binding site; other site 227941001928 Walker B motif; other site 227941001929 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 227941001930 Protein of unknown function (DUF2764); Region: DUF2764; pfam10962 227941001931 V-type ATP synthase subunit E; Provisional; Region: PRK01005 227941001932 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 227941001933 transaldolase-like protein; Provisional; Region: PTZ00411 227941001934 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 227941001935 active site 227941001936 dimer interface [polypeptide binding]; other site 227941001937 catalytic residue [active] 227941001938 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 227941001939 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 227941001940 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 227941001941 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 227941001942 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 227941001943 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 227941001944 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 227941001945 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 227941001946 DNA binding site [nucleotide binding] 227941001947 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 227941001948 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; pfam04563 227941001949 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 227941001950 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 227941001951 DNA-directed RNA polymerase, beta subunit; Region: rpoB; TIGR02013 227941001952 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 227941001953 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 227941001954 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 227941001955 RPB3 interaction site [polypeptide binding]; other site 227941001956 RPB1 interaction site [polypeptide binding]; other site 227941001957 RPB11 interaction site [polypeptide binding]; other site 227941001958 RPB10 interaction site [polypeptide binding]; other site 227941001959 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 227941001960 L11 interface [polypeptide binding]; other site 227941001961 putative EF-Tu interaction site [polypeptide binding]; other site 227941001962 putative EF-G interaction site [polypeptide binding]; other site 227941001963 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 227941001964 23S rRNA interface [nucleotide binding]; other site 227941001965 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 227941001966 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 227941001967 mRNA/rRNA interface [nucleotide binding]; other site 227941001968 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 227941001969 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 227941001970 23S rRNA interface [nucleotide binding]; other site 227941001971 L7/L12 interface [polypeptide binding]; other site 227941001972 putative thiostrepton binding site; other site 227941001973 L25 interface [polypeptide binding]; other site 227941001974 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 227941001975 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 227941001976 putative homodimer interface [polypeptide binding]; other site 227941001977 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 227941001978 heterodimer interface [polypeptide binding]; other site 227941001979 homodimer interface [polypeptide binding]; other site 227941001980 preprotein translocase, SecE subunit, bacterial; Region: secE_bact; TIGR00964 227941001981 elongation factor Tu; Reviewed; Region: PRK12735 227941001982 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 227941001983 G1 box; other site 227941001984 GEF interaction site [polypeptide binding]; other site 227941001985 GTP/Mg2+ binding site [chemical binding]; other site 227941001986 Switch I region; other site 227941001987 G2 box; other site 227941001988 G3 box; other site 227941001989 Switch II region; other site 227941001990 G4 box; other site 227941001991 G5 box; other site 227941001992 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 227941001993 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 227941001994 Antibiotic Binding Site [chemical binding]; other site 227941001995 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 227941001996 rRNA binding site [nucleotide binding]; other site 227941001997 predicted 30S ribosome binding site; other site 227941001998 Fe-S metabolism associated domain; Region: SufE; cl00951 227941001999 IncA protein; Region: IncA; pfam04156 227941002000 BioY family; Region: BioY; pfam02632 227941002001 Protein of unknown function (DUF687); Region: DUF687; pfam05095 227941002002 dihydrodipicolinate synthase; Region: dapA; TIGR00674 227941002003 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 227941002004 dimer interface [polypeptide binding]; other site 227941002005 active site 227941002006 catalytic residue [active] 227941002007 aspartate kinase; Provisional; Region: PRK05925 227941002008 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 227941002009 nucleotide binding site [chemical binding]; other site 227941002010 substrate binding site [chemical binding]; other site 227941002011 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 227941002012 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 227941002013 dihydrodipicolinate reductase; Provisional; Region: PRK00048 227941002014 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 227941002015 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 227941002016 phenylalanine 4-monooxygenase; Reviewed; Region: phhA; PRK11913 227941002017 cofactor binding site; other site 227941002018 metal binding site [ion binding]; metal-binding site 227941002019 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 227941002020 Ulp1 protease family, C-terminal catalytic domain; Region: Peptidase_C48; cl17784 227941002021 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 227941002022 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 227941002023 NAD(P) binding site [chemical binding]; other site 227941002024 active site 227941002025 chlamydiaphage internal scaffolding protein; Region: chlamy_scaf; TIGR02763 227941002026 putative replication initiation protein; Region: PHA00330 227941002027 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 227941002028 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 227941002029 hinge; other site 227941002030 active site 227941002031 shikimate kinase; Provisional; Region: PRK00625 227941002032 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 227941002033 ADP binding site [chemical binding]; other site 227941002034 magnesium binding site [ion binding]; other site 227941002035 putative shikimate binding site; other site 227941002036 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 227941002037 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 227941002038 Tetramer interface [polypeptide binding]; other site 227941002039 active site 227941002040 FMN-binding site [chemical binding]; other site 227941002041 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 227941002042 active site 227941002043 dimer interface [polypeptide binding]; other site 227941002044 metal binding site [ion binding]; metal-binding site 227941002045 bifunctional 3-dehydroquinate dehydratase/shikimate dehydrogenase protein; Reviewed; Region: aroDE; PRK09310 227941002046 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 227941002047 active site 227941002048 catalytic residue [active] 227941002049 dimer interface [polypeptide binding]; other site 227941002050 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 227941002051 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 227941002052 shikimate binding site; other site 227941002053 NAD(P) binding site [chemical binding]; other site 227941002054 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 227941002055 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 227941002056 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 227941002057 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC) [Amino acid transport and metabolism]; Region: COG1945 227941002058 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 227941002059 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 227941002060 malate dehydrogenase; Provisional; Region: PRK05442 227941002061 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 227941002062 NAD(P) binding site [chemical binding]; other site 227941002063 LDH/MDH dimer interface [polypeptide binding]; other site 227941002064 substrate binding site [chemical binding]; other site 227941002065 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14095 227941002066 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 227941002067 active site 227941002068 dimer interface [polypeptide binding]; other site 227941002069 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 227941002070 dimer interface [polypeptide binding]; other site 227941002071 active site 227941002072 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 227941002073 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 227941002074 active site 227941002075 DNA binding site [nucleotide binding] 227941002076 Int/Topo IB signature motif; other site 227941002077 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 227941002078 Protein of unknown function (DUF2464); Region: DUF2464; pfam10240 227941002079 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 227941002080 S-adenosylmethionine binding site [chemical binding]; other site 227941002081 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 227941002082 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 227941002083 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 227941002084 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 227941002085 Active site serine [active] 227941002086 Na+/H+ antiporter, NhaD family; Region: NhaD; TIGR00775 227941002087 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 227941002088 high affinity sulphate transporter 1; Region: sulP; TIGR00815 227941002089 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 227941002090 Sulfate transporter family; Region: Sulfate_transp; pfam00916 227941002091 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 227941002092 fumarate hydratase; Reviewed; Region: fumC; PRK00485 227941002093 Class II fumarases; Region: Fumarase_classII; cd01362 227941002094 active site 227941002095 tetramer interface [polypeptide binding]; other site 227941002096 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 227941002097 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 227941002098 dimer interface [polypeptide binding]; other site 227941002099 conserved gate region; other site 227941002100 putative PBP binding loops; other site 227941002101 ABC-ATPase subunit interface; other site 227941002102 NMT1/THI5 like; Region: NMT1; pfam09084 227941002103 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 227941002104 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 227941002105 methionine aminopeptidase; Provisional; Region: PRK12318 227941002106 SEC-C motif; Region: SEC-C; pfam02810 227941002107 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 227941002108 active site 227941002109 Erg28 like protein; Region: Erg28; pfam03694 227941002110 Protein of unknown function (DUF720); Region: DUF720; pfam05302 227941002111 Protein of unknown function (DUF720); Region: DUF720; pfam05302 227941002112 Protein of unknown function (DUF720); Region: DUF720; pfam05302 227941002113 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 227941002114 nucleoside/Zn binding site; other site 227941002115 dimer interface [polypeptide binding]; other site 227941002116 catalytic motif [active] 227941002117 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 227941002118 16S/18S rRNA binding site [nucleotide binding]; other site 227941002119 S13e-L30e interaction site [polypeptide binding]; other site 227941002120 25S rRNA binding site [nucleotide binding]; other site 227941002121 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 227941002122 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 227941002123 RNase E interface [polypeptide binding]; other site 227941002124 trimer interface [polypeptide binding]; other site 227941002125 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 227941002126 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 227941002127 RNase E interface [polypeptide binding]; other site 227941002128 trimer interface [polypeptide binding]; other site 227941002129 active site 227941002130 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 227941002131 putative nucleic acid binding region [nucleotide binding]; other site 227941002132 G-X-X-G motif; other site 227941002133 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 227941002134 RNA binding site [nucleotide binding]; other site 227941002135 domain interface; other site 227941002136 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 227941002137 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 227941002138 Walker A motif; other site 227941002139 ATP binding site [chemical binding]; other site 227941002140 Walker B motif; other site 227941002141 arginine finger; other site 227941002142 Peptidase family M41; Region: Peptidase_M41; pfam01434 227941002143 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 227941002144 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 227941002145 Ligand Binding Site [chemical binding]; other site 227941002146 Predicted permeases [General function prediction only]; Region: COG0795 227941002147 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 227941002148 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 227941002149 Predicted permeases [General function prediction only]; Region: COG0795 227941002150 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 227941002151 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 227941002152 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 227941002153 motif 1; other site 227941002154 dimer interface [polypeptide binding]; other site 227941002155 active site 227941002156 motif 2; other site 227941002157 motif 3; other site 227941002158 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 227941002159 23S rRNA binding site [nucleotide binding]; other site 227941002160 L21 binding site [polypeptide binding]; other site 227941002161 L13 binding site [polypeptide binding]; other site 227941002162 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 227941002163 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 227941002164 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 227941002165 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 227941002166 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 227941002167 putative RNA binding site [nucleotide binding]; other site 227941002168 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 227941002169 FAD binding domain; Region: FAD_binding_4; pfam01565 227941002170 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 227941002171 Methyltransferase domain; Region: Methyltransf_31; pfam13847 227941002172 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 227941002173 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 227941002174 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 227941002175 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 227941002176 dimer interface [polypeptide binding]; other site 227941002177 putative radical transfer pathway; other site 227941002178 diiron center [ion binding]; other site 227941002179 tyrosyl radical; other site 227941002180 ribonucleotide-diphosphate reductase subunit alpha; Provisional; Region: PRK12365 227941002181 ATP cone domain; Region: ATP-cone; pfam03477 227941002182 ATP cone domain; Region: ATP-cone; pfam03477 227941002183 Class I ribonucleotide reductase; Region: RNR_I; cd01679 227941002184 active site 227941002185 dimer interface [polypeptide binding]; other site 227941002186 catalytic residues [active] 227941002187 effector binding site; other site 227941002188 R2 peptide binding site; other site 227941002189 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 227941002190 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 227941002191 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 227941002192 RmuC family; Region: RmuC; pfam02646 227941002193 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 227941002194 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 227941002195 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 227941002196 Peptidase M16C associated; Region: M16C_assoc; pfam08367 227941002197 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 227941002198 hypothetical protein; Provisional; Region: PRK08201 227941002199 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 227941002200 metal binding site [ion binding]; metal-binding site 227941002201 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 227941002202 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 227941002203 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 227941002204 protein binding site [polypeptide binding]; other site 227941002205 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 227941002206 protein binding site [polypeptide binding]; other site 227941002207 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 227941002208 CoA binding domain; Region: CoA_binding; smart00881 227941002209 CoA-ligase; Region: Ligase_CoA; pfam00549 227941002210 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 227941002211 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 227941002212 CoA-ligase; Region: Ligase_CoA; pfam00549 227941002213 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 227941002214 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 227941002215 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 227941002216 P loop; other site 227941002217 GTP binding site [chemical binding]; other site 227941002218 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 227941002219 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 227941002220 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 227941002221 aromatic amino acid transport protein; Region: araaP; TIGR00837 227941002222 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 227941002223 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 227941002224 glutaminase active site [active] 227941002225 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 227941002226 dimer interface [polypeptide binding]; other site 227941002227 active site 227941002228 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 227941002229 dimer interface [polypeptide binding]; other site 227941002230 active site 227941002231 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 227941002232 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 227941002233 active site 227941002234 substrate binding site [chemical binding]; other site 227941002235 metal binding site [ion binding]; metal-binding site 227941002236 poly(A) polymerase; Region: pcnB; TIGR01942 227941002237 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 227941002238 active site 227941002239 NTP binding site [chemical binding]; other site 227941002240 metal binding triad [ion binding]; metal-binding site 227941002241 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 227941002242 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK01021 227941002243 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; pfam07578 227941002244 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 227941002245 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 227941002246 IncA protein; Region: IncA; pfam04156 227941002247 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 227941002248 IncA protein; Region: IncA; pfam04156 227941002249 IncA protein; Region: IncA; pfam04156 227941002250 IncA protein; Region: IncA; pfam04156 227941002251 IncA protein; Region: IncA; pfam04156 227941002252 Uncharacterized conserved protein CG6151-P; Region: Cg6151-P; cl10918 227941002253 IncA protein; Region: IncA; pfam04156 227941002254 Domain of Unknown Function (DUF1539); Region: DUF1539; pfam07560 227941002255 Domain of Unknown Function (DUF1548); Region: DUF1548; pfam07579 227941002256 Domain of Unknown Function (DUF1539); Region: DUF1539; pfam07560 227941002257 Domain of Unknown Function (DUF1539); Region: DUF1539; pfam07560 227941002258 Domain of Unknown Function (DUF1548); Region: DUF1548; pfam07579 227941002259 Domain of Unknown Function (DUF1539); Region: DUF1539; pfam07560 227941002260 Domain of Unknown Function (DUF1548); Region: DUF1548; pfam07579 227941002261 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 227941002262 Autotransporter beta-domain; Region: Autotransporter; pfam03797 227941002263 putative glycerol-3-phosphate acyltransferase PlsX; Provisional; Region: PRK13846 227941002264 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 227941002265 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 227941002266 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 227941002267 homodimer interface [polypeptide binding]; other site 227941002268 oligonucleotide binding site [chemical binding]; other site 227941002269 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT; Region: LPLAT_GPAT; cd07985 227941002270 putative G3P-binding pocket; other site 227941002271 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 227941002272 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 227941002273 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 227941002274 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 227941002275 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 227941002276 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK00650 227941002277 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 227941002278 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 227941002279 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 227941002280 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 227941002281 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 227941002282 Ribosomal protein S6 [Translation, ribosomal structure and biogenesis]; Region: RpsF; COG0360 227941002283 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 227941002284 putative active site [active] 227941002285 catalytic residue [active] 227941002286 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 227941002287 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 227941002288 5S rRNA interface [nucleotide binding]; other site 227941002289 CTC domain interface [polypeptide binding]; other site 227941002290 L16 interface [polypeptide binding]; other site 227941002291 glycogen/starch synthase, ADP-glucose type; Region: glgA; TIGR02095 227941002292 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 227941002293 ADP-binding pocket [chemical binding]; other site 227941002294 homodimer interface [polypeptide binding]; other site 227941002295 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 227941002296 glycyl-tRNA synthetase; Provisional; Region: PRK14908 227941002297 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 227941002298 dimer interface [polypeptide binding]; other site 227941002299 motif 1; other site 227941002300 active site 227941002301 motif 2; other site 227941002302 motif 3; other site 227941002303 DNA primase; Validated; Region: dnaG; PRK05667 227941002304 CHC2 zinc finger; Region: zf-CHC2; pfam01807 227941002305 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 227941002306 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 227941002307 active site 227941002308 metal binding site [ion binding]; metal-binding site 227941002309 interdomain interaction site; other site 227941002310 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 227941002311 MutS domain I; Region: MutS_I; pfam01624 227941002312 MutS domain II; Region: MutS_II; pfam05188 227941002313 MutS domain III; Region: MutS_III; pfam05192 227941002314 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 227941002315 Walker A/P-loop; other site 227941002316 ATP binding site [chemical binding]; other site 227941002317 Q-loop/lid; other site 227941002318 ABC transporter signature motif; other site 227941002319 Walker B; other site 227941002320 D-loop; other site 227941002321 H-loop/switch region; other site 227941002322 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 227941002323 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 227941002324 GIY-YIG motif/motif A; other site 227941002325 active site 227941002326 catalytic site [active] 227941002327 putative DNA binding site [nucleotide binding]; other site 227941002328 metal binding site [ion binding]; metal-binding site 227941002329 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 227941002330 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 227941002331 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 227941002332 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 227941002333 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 227941002334 ribonuclease P; Reviewed; Region: rnpA; PRK00730 227941002335 Thioredoxin-like; Region: Thioredoxin_7; pfam13899 227941002336 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 227941002337 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 227941002338 active site 227941002339 HIGH motif; other site 227941002340 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 227941002341 KMSKS motif; other site 227941002342 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 227941002343 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 227941002344 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 227941002345 dimer interface [polypeptide binding]; other site 227941002346 putative anticodon binding site; other site 227941002347 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 227941002348 motif 1; other site 227941002349 dimer interface [polypeptide binding]; other site 227941002350 active site 227941002351 motif 2; other site 227941002352 motif 3; other site 227941002353 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 227941002354 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 227941002355 primosome assembly protein PriA; Validated; Region: PRK05580 227941002356 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 227941002357 ATP binding site [chemical binding]; other site 227941002358 putative Mg++ binding site [ion binding]; other site 227941002359 helicase superfamily c-terminal domain; Region: HELICc; smart00490 227941002360 ATP-binding site [chemical binding]; other site 227941002361 8-amino-7-oxononanoate synthase; Provisional; Region: PRK05937 227941002362 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 227941002363 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 227941002364 catalytic residue [active] 227941002365 long chain fatty acid--[acyl-carrier-protein] ligase; Validated; Region: PRK06334 227941002366 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 227941002367 acyl-activating enzyme (AAE) consensus motif; other site 227941002368 AMP binding site [chemical binding]; other site 227941002369 active site 227941002370 CoA binding site [chemical binding]; other site 227941002371 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 227941002372 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 227941002373 putative acyl-acceptor binding pocket; other site 227941002374 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 227941002375 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 227941002376 active site 227941002377 putative lithium-binding site [ion binding]; other site 227941002378 substrate binding site [chemical binding]; other site 227941002379 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 227941002380 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 227941002381 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 227941002382 NAD binding site [chemical binding]; other site 227941002383 Phe binding site; other site 227941002384 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 227941002385 dimer interface [polypeptide binding]; other site 227941002386 substrate binding site [chemical binding]; other site 227941002387 metal binding sites [ion binding]; metal-binding site 227941002388 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 227941002389 active site 227941002390 Ap4A binding cleft/pocket [chemical binding]; other site 227941002391 P4 phosphate binding site; other site 227941002392 nudix motif; other site 227941002393 putative P2/P3 phosphate binding site [ion binding]; other site 227941002394 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 227941002395 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 227941002396 dimer interface [polypeptide binding]; other site 227941002397 active site 227941002398 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 227941002399 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 227941002400 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 227941002401 hypothetical protein; Provisional; Region: PRK05927 227941002402 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 227941002403 FeS/SAM binding site; other site 227941002404 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 227941002405 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 227941002406 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 227941002407 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 227941002408 anti sigma factor interaction site; other site 227941002409 regulatory phosphorylation site [posttranslational modification]; other site 227941002410 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 227941002411 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 227941002412 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cd02409 227941002413 G-X-X-G motif; other site 227941002414 bifunctional D-alanyl-alanine synthetase A/UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: PRK14573 227941002415 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 227941002416 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 227941002417 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 227941002418 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 227941002419 ATP-grasp domain; Region: ATP-grasp_4; cl17255 227941002420 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 227941002421 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 227941002422 active site 227941002423 homodimer interface [polypeptide binding]; other site 227941002424 cell division protein FtsW; Region: ftsW; TIGR02614 227941002425 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 227941002426 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 227941002427 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK00683 227941002428 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 227941002429 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 227941002430 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 227941002431 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 227941002432 Mg++ binding site [ion binding]; other site 227941002433 putative catalytic motif [active] 227941002434 putative substrate binding site [chemical binding]; other site 227941002435 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 227941002436 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 227941002437 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 227941002438 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 227941002439 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 227941002440 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 227941002441 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 227941002442 active site 227941002443 metal binding site [ion binding]; metal-binding site 227941002444 elongation factor P; Validated; Region: PRK00529 227941002445 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 227941002446 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 227941002447 RNA binding site [nucleotide binding]; other site 227941002448 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 227941002449 RNA binding site [nucleotide binding]; other site 227941002450 AMP nucleosidase; Provisional; Region: PRK07115 227941002451 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 227941002452 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 227941002453 TPP-binding site [chemical binding]; other site 227941002454 dimer interface [polypeptide binding]; other site 227941002455 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 227941002456 PYR/PP interface [polypeptide binding]; other site 227941002457 dimer interface [polypeptide binding]; other site 227941002458 TPP binding site [chemical binding]; other site 227941002459 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 227941002460 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 227941002461 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 227941002462 motif 1; other site 227941002463 active site 227941002464 motif 2; other site 227941002465 motif 3; other site 227941002466 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 227941002467 DHHA1 domain; Region: DHHA1; pfam02272 227941002468 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 227941002469 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 227941002470 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 227941002471 ATP binding site [chemical binding]; other site 227941002472 putative Mg++ binding site [ion binding]; other site 227941002473 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 227941002474 nucleotide binding region [chemical binding]; other site 227941002475 ATP-binding site [chemical binding]; other site 227941002476 TRCF domain; Region: TRCF; pfam03461 227941002477 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 227941002478 substrate binding site [chemical binding]; other site 227941002479 active site 227941002480 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 227941002481 HemN C-terminal domain; Region: HemN_C; pfam06969 227941002482 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 227941002483 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 227941002484 Histone H1-like protein Hc1; Region: Hc1; pfam07432 227941002485 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 227941002486 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 227941002487 S-adenosylmethionine binding site [chemical binding]; other site 227941002488 preprotein translocase, YajC subunit; Region: yajC; TIGR00739 227941002489 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 227941002490 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 227941002491 catalytic loop [active] 227941002492 iron binding site [ion binding]; other site 227941002493 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 227941002494 FAD binding pocket [chemical binding]; other site 227941002495 FAD binding motif [chemical binding]; other site 227941002496 phosphate binding motif [ion binding]; other site 227941002497 beta-alpha-beta structure motif; other site 227941002498 NAD binding pocket [chemical binding]; other site 227941002499 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 227941002500 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 227941002501 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 227941002502 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 227941002503 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 227941002504 Proteins containing SET domain [General function prediction only]; Region: COG2940 227941002505 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 227941002506 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 227941002507 substrate binding site [chemical binding]; other site 227941002508 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 227941002509 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 227941002510 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 227941002511 homopentamer interface [polypeptide binding]; other site 227941002512 active site 227941002513 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 227941002514 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 227941002515 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 227941002516 dimerization interface [polypeptide binding]; other site 227941002517 active site 227941002518 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 227941002519 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 227941002520 catalytic motif [active] 227941002521 Zn binding site [ion binding]; other site 227941002522 RibD C-terminal domain; Region: RibD_C; cl17279 227941002523 seryl-tRNA synthetase; Provisional; Region: PRK05431 227941002524 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 227941002525 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 227941002526 dimer interface [polypeptide binding]; other site 227941002527 active site 227941002528 motif 1; other site 227941002529 motif 2; other site 227941002530 motif 3; other site 227941002531 CCC1-related family of proteins; Region: CCC1_like; cl00278 227941002532 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 227941002533 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 227941002534 Soluble P-type ATPase [General function prediction only]; Region: COG4087 227941002535 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 227941002536 biotin--protein ligase; Provisional; Region: PRK05935 227941002537 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 227941002538 short chain dehydrogenase; Provisional; Region: PRK08303 227941002539 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 227941002540 catalytic core [active] 227941002541 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 227941002542 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 227941002543 catalytic residue [active] 227941002544 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 227941002545 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 227941002546 NifU-like domain; Region: NifU; cl00484 227941002547 type III secretion system protein; Validated; Region: PRK05934 227941002548 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 227941002549 MgtE intracellular N domain; Region: MgtE_N; cl15244 227941002550 Flagellar biosynthesis/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliH; COG1317 227941002551 type III secretion system ATPase; Validated; Region: PRK05922 227941002552 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 227941002553 Walker A motif; other site 227941002554 ATP binding site [chemical binding]; other site 227941002555 Walker B motif; other site 227941002556 UDP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: COG4284 227941002557 UDPGlcNAc pyrophosphorylase catalayzes the synthesis of UDPGlcNAc; Region: UDPGlcNAc_PPase; cd04193 227941002558 substrate binding site; other site 227941002559 dimerization interface; other site 227941002560 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 227941002561 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 227941002562 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 227941002563 Effector from type III secretion system; Region: Effector_1; pfam04518 227941002564 Effector from type III secretion system; Region: Effector_1; pfam04518 227941002565 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 227941002566 active site 227941002567 substrate-binding site [chemical binding]; other site 227941002568 metal-binding site [ion binding] 227941002569 GTP binding site [chemical binding]; other site 227941002570 rod shape-determining protein MreB; Provisional; Region: PRK13927 227941002571 MreB and similar proteins; Region: MreB_like; cd10225 227941002572 nucleotide binding site [chemical binding]; other site 227941002573 Mg binding site [ion binding]; other site 227941002574 putative protofilament interaction site [polypeptide binding]; other site 227941002575 RodZ interaction site [polypeptide binding]; other site 227941002576 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 227941002577 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 227941002578 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 227941002579 ATP binding site [chemical binding]; other site 227941002580 putative Mg++ binding site [ion binding]; other site 227941002581 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 227941002582 nucleotide binding region [chemical binding]; other site 227941002583 ATP-binding site [chemical binding]; other site 227941002584 trigger factor; Provisional; Region: tig; PRK01490 227941002585 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 227941002586 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 227941002587 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 227941002588 oligomer interface [polypeptide binding]; other site 227941002589 active site residues [active] 227941002590 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 227941002591 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 227941002592 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 227941002593 Walker A motif; other site 227941002594 ATP binding site [chemical binding]; other site 227941002595 Walker B motif; other site 227941002596 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 227941002597 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 227941002598 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 227941002599 active site 227941002600 NTP binding site [chemical binding]; other site 227941002601 metal binding triad [ion binding]; metal-binding site 227941002602 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 227941002603 GTP-binding protein Der; Reviewed; Region: PRK00093 227941002604 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 227941002605 G1 box; other site 227941002606 GTP/Mg2+ binding site [chemical binding]; other site 227941002607 Switch I region; other site 227941002608 G2 box; other site 227941002609 Switch II region; other site 227941002610 G3 box; other site 227941002611 G4 box; other site 227941002612 G5 box; other site 227941002613 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 227941002614 G1 box; other site 227941002615 GTP/Mg2+ binding site [chemical binding]; other site 227941002616 Switch I region; other site 227941002617 G2 box; other site 227941002618 G3 box; other site 227941002619 Switch II region; other site 227941002620 G4 box; other site 227941002621 G5 box; other site 227941002622 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12899 227941002623 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; cl17251 227941002624 ATP binding site [chemical binding]; other site 227941002625 putative Mg++ binding site [ion binding]; other site 227941002626 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 227941002627 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; cl17351 227941002628 nucleotide binding region [chemical binding]; other site 227941002629 ATP-binding site [chemical binding]; other site 227941002630 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 227941002631 binding surface 227941002632 TPR motif; other site 227941002633 phosphatidylserine decarboxylase; Provisional; Region: PRK00723 227941002634 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 227941002635 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 227941002636 trmE is a tRNA modification GTPase; Region: trmE; cd04164 227941002637 G1 box; other site 227941002638 GTP/Mg2+ binding site [chemical binding]; other site 227941002639 Switch I region; other site 227941002640 G2 box; other site 227941002641 Switch II region; other site 227941002642 G3 box; other site 227941002643 G4 box; other site 227941002644 G5 box; other site 227941002645 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 227941002646 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 227941002647 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 227941002648 minor groove reading motif; other site 227941002649 helix-hairpin-helix signature motif; other site 227941002650 substrate binding pocket [chemical binding]; other site 227941002651 active site 227941002652 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 227941002653 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 227941002654 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 227941002655 ATP binding site [chemical binding]; other site 227941002656 putative Mg++ binding site [ion binding]; other site 227941002657 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 227941002658 nucleotide binding region [chemical binding]; other site 227941002659 ATP-binding site [chemical binding]; other site 227941002660 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 227941002661 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 227941002662 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 227941002663 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 227941002664 lipoyl synthase; Provisional; Region: PRK05481 227941002665 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 227941002666 FeS/SAM binding site; other site 227941002667 Type III secretory pathway, lipoprotein EscJ [Intracellular trafficking and secretion]; Region: EscJ; COG4669 227941002668 type III secretion system protein; Validated; Region: PRK06328 227941002669 Flagellar assembly protein FliH; Region: FliH; pfam02108 227941002670 type III secretion system protein; Reviewed; Region: PRK09617 227941002671 Type III secretory pathway, component EscS [Intracellular trafficking and secretion]; Region: EscS; COG4794 227941002672 Type III secretory pathway, component EscT [Intracellular trafficking and secretion]; Region: EscT; COG4791 227941002673 Protein of unknown function (DUF1494); Region: DUF1494; pfam07379 227941002674 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 227941002675 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 227941002676 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 227941002677 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 227941002678 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 227941002679 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 227941002680 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 227941002681 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 227941002682 Walker A motif; other site 227941002683 ATP binding site [chemical binding]; other site 227941002684 Walker B motif; other site 227941002685 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 227941002686 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 227941002687 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 227941002688 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 227941002689 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 227941002690 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 227941002691 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 227941002692 active site 227941002693 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 227941002694 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 227941002695 ATP binding site [chemical binding]; other site 227941002696 Mg2+ binding site [ion binding]; other site 227941002697 G-X-G motif; other site 227941002698 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 227941002699 ATP binding site [chemical binding]; other site 227941002700 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 227941002701 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 227941002702 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 227941002703 binding surface 227941002704 TPR motif; other site 227941002705 Secretion system effector C (SseC) like family; Region: SseC; pfam04888 227941002706 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 227941002707 EamA-like transporter family; Region: EamA; pfam00892 227941002708 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 227941002709 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 227941002710 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 227941002711 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 227941002712 active site 227941002713 dimer interface [polypeptide binding]; other site 227941002714 motif 1; other site 227941002715 motif 2; other site 227941002716 motif 3; other site 227941002717 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 227941002718 anticodon binding site; other site 227941002719 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 227941002720 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 227941002721 Uncharacterized protein family (UPF0137); Region: UPF0137; pfam03677 227941002722 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 227941002723 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 227941002724 active site 227941002725 HIGH motif; other site 227941002726 dimer interface [polypeptide binding]; other site 227941002727 KMSKS motif; other site 227941002728 excinuclease ABC subunit B; Provisional; Region: PRK05298 227941002729 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 227941002730 ATP binding site [chemical binding]; other site 227941002731 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 227941002732 nucleotide binding region [chemical binding]; other site 227941002733 ATP-binding site [chemical binding]; other site 227941002734 Ultra-violet resistance protein B; Region: UvrB; pfam12344 227941002735 UvrB/uvrC motif; Region: UVR; pfam02151 227941002736 enolase; Provisional; Region: eno; PRK00077 227941002737 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 227941002738 dimer interface [polypeptide binding]; other site 227941002739 metal binding site [ion binding]; metal-binding site 227941002740 substrate binding pocket [chemical binding]; other site 227941002741 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 227941002742 HAMP domain; Region: HAMP; pfam00672 227941002743 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 227941002744 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 227941002745 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 227941002746 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 227941002747 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 227941002748 L-aspartate oxidase; Provisional; Region: PRK06175 227941002749 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 227941002750 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 227941002751 putative Iron-sulfur protein interface [polypeptide binding]; other site 227941002752 proximal heme binding site [chemical binding]; other site 227941002753 distal heme binding site [chemical binding]; other site 227941002754 putative dimer interface [polypeptide binding]; other site 227941002755 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 227941002756 active site 227941002757 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 227941002758 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 227941002759 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 227941002760 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 227941002761 DsbD alpha interface [polypeptide binding]; other site 227941002762 catalytic residues [active] 227941002763 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 227941002764 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 227941002765 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 227941002766 translocation protein TolB; Provisional; Region: tolB; PRK01029 227941002767 TolB amino-terminal domain; Region: TolB_N; pfam04052 227941002768 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 227941002769 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 227941002770 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 227941002771 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 227941002772 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 227941002773 ligand binding site [chemical binding]; other site 227941002774 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 227941002775 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 227941002776 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 227941002777 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 227941002778 dimer interface [polypeptide binding]; other site 227941002779 decamer (pentamer of dimers) interface [polypeptide binding]; other site 227941002780 catalytic triad [active] 227941002781 peroxidatic and resolving cysteines [active] 227941002782 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 227941002783 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 227941002784 ring oligomerisation interface [polypeptide binding]; other site 227941002785 ATP/Mg binding site [chemical binding]; other site 227941002786 stacking interactions; other site 227941002787 hinge regions; other site 227941002788 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 227941002789 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 227941002790 active site 227941002791 dimerization interface [polypeptide binding]; other site 227941002792 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 227941002793 ligand binding site [chemical binding]; other site 227941002794 active site 227941002795 UGI interface [polypeptide binding]; other site 227941002796 catalytic site [active] 227941002797 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 227941002798 Part of AAA domain; Region: AAA_19; pfam13245 227941002799 Family description; Region: UvrD_C_2; pfam13538 227941002800 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 227941002801 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 227941002802 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 227941002803 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 227941002804 DNA topoisomerase I/SWI domain fusion protein; Validated; Region: PRK06319 227941002805 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 227941002806 active site 227941002807 interdomain interaction site; other site 227941002808 putative metal-binding site [ion binding]; other site 227941002809 nucleotide binding site [chemical binding]; other site 227941002810 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 227941002811 domain I; other site 227941002812 DNA binding groove [nucleotide binding] 227941002813 phosphate binding site [ion binding]; other site 227941002814 domain II; other site 227941002815 domain III; other site 227941002816 nucleotide binding site [chemical binding]; other site 227941002817 catalytic site [active] 227941002818 domain IV; other site 227941002819 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 227941002820 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 227941002821 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 227941002822 SWIB/MDM2 domain; Region: SWIB; pfam02201 227941002823 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 227941002824 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 227941002825 FMN binding site [chemical binding]; other site 227941002826 active site 227941002827 catalytic residues [active] 227941002828 substrate binding site [chemical binding]; other site 227941002829 YGGT family; Region: YGGT; pfam02325 227941002830 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 227941002831 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 227941002832 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 227941002833 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 227941002834 recombinase A; Provisional; Region: recA; PRK09354 227941002835 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 227941002836 hexamer interface [polypeptide binding]; other site 227941002837 Walker A motif; other site 227941002838 ATP binding site [chemical binding]; other site 227941002839 Walker B motif; other site 227941002840 putative folate metabolism protein, CADD family; Region: fol_rel_CADD; TIGR04305 227941002841 putative folate metabolism gamma-glutamate ligase; Region: intra_fol_E_lig; TIGR04132 227941002842 GTP and metal dependent enzyme involved F420 coenzyme biosynthesis (catalyzes addition of two l-glutamates to F420 precursor) [Coenzyme transport and metabolism]; Region: COG1478 227941002843 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 227941002844 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 227941002845 folate binding site [chemical binding]; other site 227941002846 NADP+ binding site [chemical binding]; other site 227941002847 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 227941002848 catalytic center binding site [active] 227941002849 ATP binding site [chemical binding]; other site 227941002850 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 227941002851 dihydropteroate synthase; Region: DHPS; TIGR01496 227941002852 substrate binding pocket [chemical binding]; other site 227941002853 dimer interface [polypeptide binding]; other site 227941002854 inhibitor binding site; inhibition site 227941002855 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 227941002856 homooctamer interface [polypeptide binding]; other site 227941002857 active site 227941002858 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 227941002859 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 227941002860 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 227941002861 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 227941002862 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 227941002863 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 227941002864 DNA binding residues [nucleotide binding] 227941002865 Uncharacterized protein family (UPF0242); Region: UPF0242; pfam06785 227941002866 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 227941002867 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 227941002868 AAA domain; Region: AAA_30; pfam13604 227941002869 Family description; Region: UvrD_C_2; pfam13538 227941002870 Protein of unknown function (DUF1347); Region: DUF1347; pfam07079 227941002871 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 227941002872 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 227941002873 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 227941002874 DNA binding site [nucleotide binding] 227941002875 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 227941002876 putative trimer interface [polypeptide binding]; other site 227941002877 putative CoA binding site [chemical binding]; other site 227941002878 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 227941002879 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 227941002880 substrate binding pocket [chemical binding]; other site 227941002881 chain length determination region; other site 227941002882 substrate-Mg2+ binding site; other site 227941002883 catalytic residues [active] 227941002884 aspartate-rich region 1; other site 227941002885 active site lid residues [active] 227941002886 aspartate-rich region 2; other site 227941002887 Predicted alternative thymidylate synthase [Nucleotide transport and metabolism]; Region: THY1; COG1351 227941002888 Thymidylate synthase complementing protein; Region: Thy1; cl03630 227941002889 Uncharacterized protein family (UPF0137); Region: UPF0137; pfam03677 227941002890 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 227941002891 active site 227941002892 catalytic residues [active] 227941002893 DNA binding site [nucleotide binding] 227941002894 Int/Topo IB signature motif; other site 227941002895 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 227941002896 active site 227941002897 catalytic residues [active] 227941002898 DNA binding site [nucleotide binding] 227941002899 Int/Topo IB signature motif; other site 227941002900 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 227941002901 DnaB-like helicase C terminal domain; Region: DnaB_C; pfam03796 227941002902 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 227941002903 Walker A motif; other site 227941002904 ATP binding site [chemical binding]; other site 227941002905 Walker B motif; other site 227941002906 DNA binding loops [nucleotide binding] 227941002907 Chlamydia virulence protein PGP3-D; Region: Chlam_vir; pfam05475