-- dump date 20140619_023836 -- class Genbank::misc_feature -- table misc_feature_note -- id note 658172000001 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 658172000002 putative active site [active] 658172000003 Ap4A binding site [chemical binding]; other site 658172000004 nudix motif; other site 658172000005 putative metal binding site [ion binding]; other site 658172000006 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 658172000007 NodB motif; other site 658172000008 putative active site [active] 658172000009 putative catalytic site [active] 658172000010 Zn binding site [ion binding]; other site 658172000011 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 658172000012 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 658172000013 Walker A/P-loop; other site 658172000014 ATP binding site [chemical binding]; other site 658172000015 Q-loop/lid; other site 658172000016 ABC transporter signature motif; other site 658172000017 Walker B; other site 658172000018 D-loop; other site 658172000019 H-loop/switch region; other site 658172000020 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 658172000021 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 658172000022 dimer interface [polypeptide binding]; other site 658172000023 conserved gate region; other site 658172000024 putative PBP binding loops; other site 658172000025 ABC-ATPase subunit interface; other site 658172000026 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 658172000027 dimer interface [polypeptide binding]; other site 658172000028 conserved gate region; other site 658172000029 putative PBP binding loops; other site 658172000030 ABC-ATPase subunit interface; other site 658172000031 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 658172000032 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 658172000033 Oligomerisation domain; Region: Oligomerisation; cl00519 658172000034 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; cl17189 658172000035 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 658172000036 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 658172000037 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 658172000038 dimerization interface [polypeptide binding]; other site 658172000039 putative ATP binding site [chemical binding]; other site 658172000040 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 658172000041 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 658172000042 active site 658172000043 substrate binding site [chemical binding]; other site 658172000044 cosubstrate binding site; other site 658172000045 catalytic site [active] 658172000046 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 658172000047 TadE-like protein; Region: TadE; pfam07811 658172000048 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 658172000049 TadE-like protein; Region: TadE; pfam07811 658172000050 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 658172000051 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 658172000052 active site 658172000053 HIGH motif; other site 658172000054 nucleotide binding site [chemical binding]; other site 658172000055 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 658172000056 KMSKS motif; other site 658172000057 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 658172000058 Predicted permeases [General function prediction only]; Region: RarD; COG2962 658172000059 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 658172000060 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 658172000061 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 658172000062 Walker A/P-loop; other site 658172000063 ATP binding site [chemical binding]; other site 658172000064 Q-loop/lid; other site 658172000065 ABC transporter signature motif; other site 658172000066 Walker B; other site 658172000067 D-loop; other site 658172000068 H-loop/switch region; other site 658172000069 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 658172000070 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 658172000071 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 658172000072 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 658172000073 putative active site [active] 658172000074 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 658172000075 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 658172000076 putative acyl-acceptor binding pocket; other site 658172000077 Methyltransferase domain; Region: Methyltransf_11; pfam08241 658172000078 Methyltransferase domain; Region: Methyltransf_23; pfam13489 658172000079 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 658172000080 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 658172000081 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 658172000082 HSP70 interaction site [polypeptide binding]; other site 658172000083 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 658172000084 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 658172000085 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 658172000086 active site 658172000087 DNA binding site [nucleotide binding] 658172000088 Int/Topo IB signature motif; other site 658172000089 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 658172000090 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 658172000091 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 658172000092 K+-transporting ATPase, c chain; Region: KdpC; cl00944 658172000093 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 658172000094 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 658172000095 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 658172000096 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 658172000097 catalytic residue [active] 658172000098 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 658172000099 TPR motif; other site 658172000100 binding surface 658172000101 Tetratricopeptide repeat; Region: TPR_16; pfam13432 658172000102 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 658172000103 TPR motif; other site 658172000104 binding surface 658172000105 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 658172000106 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 658172000107 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 658172000108 C-terminal domain interface [polypeptide binding]; other site 658172000109 GSH binding site (G-site) [chemical binding]; other site 658172000110 dimer interface [polypeptide binding]; other site 658172000111 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 658172000112 N-terminal domain interface [polypeptide binding]; other site 658172000113 dimer interface [polypeptide binding]; other site 658172000114 substrate binding pocket (H-site) [chemical binding]; other site 658172000115 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 658172000116 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 658172000117 putative NAD(P) binding site [chemical binding]; other site 658172000118 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 658172000119 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 658172000120 Walker A/P-loop; other site 658172000121 ATP binding site [chemical binding]; other site 658172000122 Q-loop/lid; other site 658172000123 ABC transporter signature motif; other site 658172000124 Walker B; other site 658172000125 D-loop; other site 658172000126 H-loop/switch region; other site 658172000127 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 658172000128 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 658172000129 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 658172000130 dimer interface [polypeptide binding]; other site 658172000131 conserved gate region; other site 658172000132 putative PBP binding loops; other site 658172000133 ABC-ATPase subunit interface; other site 658172000134 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 658172000135 dimer interface [polypeptide binding]; other site 658172000136 conserved gate region; other site 658172000137 putative PBP binding loops; other site 658172000138 ABC-ATPase subunit interface; other site 658172000139 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 658172000140 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 658172000141 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 658172000142 GIY-YIG motif/motif A; other site 658172000143 active site 658172000144 catalytic site [active] 658172000145 putative DNA binding site [nucleotide binding]; other site 658172000146 metal binding site [ion binding]; metal-binding site 658172000147 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 658172000148 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 658172000149 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 658172000150 DEAD-like helicases superfamily; Region: DEXDc; smart00487 658172000151 ATP binding site [chemical binding]; other site 658172000152 putative Mg++ binding site [ion binding]; other site 658172000153 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 658172000154 nucleotide binding region [chemical binding]; other site 658172000155 ATP-binding site [chemical binding]; other site 658172000156 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 658172000157 RNA binding site [nucleotide binding]; other site 658172000158 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 658172000159 aspartate aminotransferase; Provisional; Region: PRK05764 658172000160 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 658172000161 pyridoxal 5'-phosphate binding site [chemical binding]; other site 658172000162 homodimer interface [polypeptide binding]; other site 658172000163 catalytic residue [active] 658172000164 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 658172000165 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 658172000166 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 658172000167 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 658172000168 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 658172000169 substrate-cofactor binding pocket; other site 658172000170 pyridoxal 5'-phosphate binding site [chemical binding]; other site 658172000171 catalytic residue [active] 658172000172 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 658172000173 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 658172000174 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 658172000175 active site 658172000176 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 658172000177 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 658172000178 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 658172000179 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 658172000180 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 658172000181 active site 658172000182 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 658172000183 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 658172000184 active site 658172000185 metal binding site [ion binding]; metal-binding site 658172000186 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 658172000187 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 658172000188 RNA binding surface [nucleotide binding]; other site 658172000189 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 658172000190 active site 658172000191 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 658172000192 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 658172000193 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 658172000194 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 658172000195 DNA binding residues [nucleotide binding] 658172000196 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 658172000197 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 658172000198 GDP-binding site [chemical binding]; other site 658172000199 ACT binding site; other site 658172000200 IMP binding site; other site 658172000201 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK14736 658172000202 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 658172000203 gamma subunit interface [polypeptide binding]; other site 658172000204 epsilon subunit interface [polypeptide binding]; other site 658172000205 LBP interface [polypeptide binding]; other site 658172000206 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 658172000207 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 658172000208 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 658172000209 alpha subunit interaction interface [polypeptide binding]; other site 658172000210 Walker A motif; other site 658172000211 ATP binding site [chemical binding]; other site 658172000212 Walker B motif; other site 658172000213 inhibitor binding site; inhibition site 658172000214 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 658172000215 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 658172000216 core domain interface [polypeptide binding]; other site 658172000217 delta subunit interface [polypeptide binding]; other site 658172000218 epsilon subunit interface [polypeptide binding]; other site 658172000219 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 658172000220 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 658172000221 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 658172000222 beta subunit interaction interface [polypeptide binding]; other site 658172000223 Walker A motif; other site 658172000224 ATP binding site [chemical binding]; other site 658172000225 Walker B motif; other site 658172000226 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 658172000227 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 658172000228 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 658172000229 primosome assembly protein PriA; Validated; Region: PRK05580 658172000230 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 658172000231 ATP binding site [chemical binding]; other site 658172000232 putative Mg++ binding site [ion binding]; other site 658172000233 helicase superfamily c-terminal domain; Region: HELICc; smart00490 658172000234 nucleotide binding region [chemical binding]; other site 658172000235 ATP-binding site [chemical binding]; other site 658172000236 Transcriptional regulator; Region: Rrf2; cl17282 658172000237 Rrf2 family protein; Region: rrf2_super; TIGR00738 658172000238 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 658172000239 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 658172000240 putative dimer interface [polypeptide binding]; other site 658172000241 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 658172000242 Flavoprotein; Region: Flavoprotein; pfam02441 658172000243 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 658172000244 ABC1 family; Region: ABC1; cl17513 658172000245 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 658172000246 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 658172000247 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 658172000248 S-adenosylmethionine binding site [chemical binding]; other site 658172000249 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 658172000250 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 658172000251 DNA binding site [nucleotide binding] 658172000252 catalytic residue [active] 658172000253 H2TH interface [polypeptide binding]; other site 658172000254 putative catalytic residues [active] 658172000255 turnover-facilitating residue; other site 658172000256 intercalation triad [nucleotide binding]; other site 658172000257 8OG recognition residue [nucleotide binding]; other site 658172000258 putative reading head residues; other site 658172000259 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 658172000260 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 658172000261 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 658172000262 DnaA N-terminal domain; Region: DnaA_N; pfam11638 658172000263 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 658172000264 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 658172000265 Walker A motif; other site 658172000266 ATP binding site [chemical binding]; other site 658172000267 Walker B motif; other site 658172000268 arginine finger; other site 658172000269 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 658172000270 DnaA box-binding interface [nucleotide binding]; other site 658172000271 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 658172000272 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 658172000273 FeS/SAM binding site; other site 658172000274 HemN C-terminal domain; Region: HemN_C; pfam06969 658172000275 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 658172000276 active site 658172000277 dimerization interface [polypeptide binding]; other site 658172000278 ribonuclease PH; Reviewed; Region: rph; PRK00173 658172000279 Ribonuclease PH; Region: RNase_PH_bact; cd11362 658172000280 hexamer interface [polypeptide binding]; other site 658172000281 active site 658172000282 Creatinine amidohydrolase; Region: Creatininase; pfam02633 658172000283 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 658172000284 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 658172000285 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 658172000286 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 658172000287 Ligand binding site [chemical binding]; other site 658172000288 Electron transfer flavoprotein domain; Region: ETF; pfam01012 658172000289 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 658172000290 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 658172000291 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 658172000292 argininosuccinate lyase; Provisional; Region: PRK00855 658172000293 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 658172000294 active sites [active] 658172000295 tetramer interface [polypeptide binding]; other site 658172000296 diaminopimelate decarboxylase; Region: lysA; TIGR01048 658172000297 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 658172000298 active site 658172000299 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 658172000300 substrate binding site [chemical binding]; other site 658172000301 catalytic residues [active] 658172000302 dimer interface [polypeptide binding]; other site 658172000303 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 658172000304 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 658172000305 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 658172000306 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 658172000307 Uncharacterized conserved protein [Function unknown]; Region: COG3334 658172000308 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 658172000309 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 658172000310 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 658172000311 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 658172000312 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 658172000313 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 658172000314 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 658172000315 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 658172000316 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK12782 658172000317 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 658172000318 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 658172000319 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06003 658172000320 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 658172000321 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06002 658172000322 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 658172000323 Walker A motif; other site 658172000324 ATP binding site [chemical binding]; other site 658172000325 Walker B motif; other site 658172000326 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12642 658172000327 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 658172000328 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 658172000329 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 658172000330 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 658172000331 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 658172000332 flagellar motor switch protein FliN; Region: fliN; TIGR02480 658172000333 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 658172000334 MgtE intracellular N domain; Region: MgtE_N; cl15244 658172000335 FliG C-terminal domain; Region: FliG_C; pfam01706 658172000336 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 658172000337 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 658172000338 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 658172000339 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 658172000340 DNA binding residues [nucleotide binding] 658172000341 dimerization interface [polypeptide binding]; other site 658172000342 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 658172000343 DNA binding residues [nucleotide binding] 658172000344 dimerization interface [polypeptide binding]; other site 658172000345 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 658172000346 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 658172000347 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 658172000348 glutathione synthetase; Provisional; Region: PRK05246 658172000349 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 658172000350 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 658172000351 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 658172000352 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 658172000353 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 658172000354 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 658172000355 Uncharacterized conserved protein [Function unknown]; Region: COG4983 658172000356 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 658172000357 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 658172000358 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 658172000359 protein binding site [polypeptide binding]; other site 658172000360 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 658172000361 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 658172000362 dimer interface [polypeptide binding]; other site 658172000363 phosphorylation site [posttranslational modification] 658172000364 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 658172000365 ATP binding site [chemical binding]; other site 658172000366 Mg2+ binding site [ion binding]; other site 658172000367 G-X-G motif; other site 658172000368 GrpE; Region: GrpE; pfam01025 658172000369 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 658172000370 dimer interface [polypeptide binding]; other site 658172000371 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 658172000372 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 658172000373 PhoU domain; Region: PhoU; pfam01895 658172000374 PhoU domain; Region: PhoU; pfam01895 658172000375 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 658172000376 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 658172000377 Walker A/P-loop; other site 658172000378 ATP binding site [chemical binding]; other site 658172000379 Q-loop/lid; other site 658172000380 ABC transporter signature motif; other site 658172000381 Walker B; other site 658172000382 D-loop; other site 658172000383 H-loop/switch region; other site 658172000384 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 658172000385 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 658172000386 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 658172000387 dimer interface [polypeptide binding]; other site 658172000388 conserved gate region; other site 658172000389 putative PBP binding loops; other site 658172000390 ABC-ATPase subunit interface; other site 658172000391 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 658172000392 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 658172000393 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 658172000394 dimer interface [polypeptide binding]; other site 658172000395 conserved gate region; other site 658172000396 putative PBP binding loops; other site 658172000397 ABC-ATPase subunit interface; other site 658172000398 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 658172000399 Intracellular septation protein A; Region: IspA; pfam04279 658172000400 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 658172000401 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 658172000402 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 658172000403 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 658172000404 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 658172000405 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 658172000406 signal recognition particle protein; Provisional; Region: PRK10867 658172000407 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 658172000408 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 658172000409 P loop; other site 658172000410 GTP binding site [chemical binding]; other site 658172000411 Signal peptide binding domain; Region: SRP_SPB; pfam02978 658172000412 Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]; Region: RpsP; COG0228 658172000413 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 658172000414 RimM N-terminal domain; Region: RimM; pfam01782 658172000415 PRC-barrel domain; Region: PRC; pfam05239 658172000416 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 658172000417 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 658172000418 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 658172000419 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 658172000420 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 658172000421 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 658172000422 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 658172000423 metal binding site [ion binding]; metal-binding site 658172000424 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 658172000425 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 658172000426 Walker A/P-loop; other site 658172000427 ATP binding site [chemical binding]; other site 658172000428 Q-loop/lid; other site 658172000429 ABC transporter signature motif; other site 658172000430 Walker B; other site 658172000431 D-loop; other site 658172000432 H-loop/switch region; other site 658172000433 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 658172000434 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 658172000435 ABC-ATPase subunit interface; other site 658172000436 dimer interface [polypeptide binding]; other site 658172000437 putative PBP binding regions; other site 658172000438 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 658172000439 Ferritin-like domain; Region: Ferritin; pfam00210 658172000440 ferroxidase diiron center [ion binding]; other site 658172000441 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 658172000442 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 658172000443 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 658172000444 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 658172000445 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 658172000446 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 658172000447 ATP binding site [chemical binding]; other site 658172000448 Walker A motif; other site 658172000449 hexamer interface [polypeptide binding]; other site 658172000450 Walker B motif; other site 658172000451 AAA domain; Region: AAA_31; pfam13614 658172000452 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 658172000453 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 658172000454 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 658172000455 Type IV pili component [Cell motility and secretion]; Region: COG5461 658172000456 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 658172000457 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 658172000458 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 658172000459 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 658172000460 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 658172000461 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 658172000462 Flp/Fap pilin component; Region: Flp_Fap; cl01585 658172000463 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 658172000464 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 658172000465 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 658172000466 Flp/Fap pilin component; Region: Flp_Fap; cl01585 658172000467 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 658172000468 Uncharacterized conserved protein [Function unknown]; Region: COG2835 658172000469 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 658172000470 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 658172000471 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 658172000472 dimer interface [polypeptide binding]; other site 658172000473 active site 658172000474 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 658172000475 catalytic residues [active] 658172000476 substrate binding site [chemical binding]; other site 658172000477 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 658172000478 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 658172000479 NAD(P) binding pocket [chemical binding]; other site 658172000480 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 658172000481 Fe-S cluster binding site [ion binding]; other site 658172000482 active site 658172000483 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 658172000484 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 658172000485 Walker A/P-loop; other site 658172000486 ATP binding site [chemical binding]; other site 658172000487 Q-loop/lid; other site 658172000488 ABC transporter signature motif; other site 658172000489 Walker B; other site 658172000490 D-loop; other site 658172000491 H-loop/switch region; other site 658172000492 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 658172000493 OstA-like protein; Region: OstA; pfam03968 658172000494 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 658172000495 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 658172000496 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 658172000497 tandem repeat interface [polypeptide binding]; other site 658172000498 oligomer interface [polypeptide binding]; other site 658172000499 active site residues [active] 658172000500 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 658172000501 IHF - DNA interface [nucleotide binding]; other site 658172000502 IHF dimer interface [polypeptide binding]; other site 658172000503 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 658172000504 lipoprotein signal peptidase; Provisional; Region: PRK14787 658172000505 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 658172000506 MutS domain I; Region: MutS_I; pfam01624 658172000507 MutS domain II; Region: MutS_II; pfam05188 658172000508 MutS domain III; Region: MutS_III; pfam05192 658172000509 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 658172000510 Walker A/P-loop; other site 658172000511 ATP binding site [chemical binding]; other site 658172000512 Q-loop/lid; other site 658172000513 ABC transporter signature motif; other site 658172000514 Walker B; other site 658172000515 D-loop; other site 658172000516 H-loop/switch region; other site 658172000517 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 658172000518 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 658172000519 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 658172000520 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 658172000521 Transglycosylase; Region: Transgly; pfam00912 658172000522 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 658172000523 peptide chain release factor 2; Validated; Region: prfB; PRK00578 658172000524 This domain is found in peptide chain release factors; Region: PCRF; smart00937 658172000525 RF-1 domain; Region: RF-1; pfam00472 658172000526 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 658172000527 ATP-NAD kinase; Region: NAD_kinase; pfam01513 658172000528 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 658172000529 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 658172000530 substrate binding pocket [chemical binding]; other site 658172000531 chain length determination region; other site 658172000532 substrate-Mg2+ binding site; other site 658172000533 catalytic residues [active] 658172000534 aspartate-rich region 1; other site 658172000535 active site lid residues [active] 658172000536 aspartate-rich region 2; other site 658172000537 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 658172000538 Methyltransferase domain; Region: Methyltransf_26; pfam13659 658172000539 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 658172000540 dimer interface [polypeptide binding]; other site 658172000541 motif 1; other site 658172000542 active site 658172000543 motif 2; other site 658172000544 motif 3; other site 658172000545 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 658172000546 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 658172000547 catalytic residues [active] 658172000548 structural protein; Region: PHA01972 658172000549 hypothetical protein; Region: PHA00661 658172000550 hypothetical protein; Region: PHA00662 658172000551 hypothetical protein; Region: PHA00670 658172000552 Bacteriophage head to tail connecting protein; Region: Head-tail_con; pfam12236 658172000553 Terminase-like family; Region: Terminase_6; pfam03237 658172000554 Helix-turn-helix domain; Region: HTH_19; pfam12844 658172000555 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 658172000556 non-specific DNA binding site [nucleotide binding]; other site 658172000557 salt bridge; other site 658172000558 sequence-specific DNA binding site [nucleotide binding]; other site 658172000559 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 658172000560 Prophage antirepressor [Transcription]; Region: COG3617 658172000561 BRO family, N-terminal domain; Region: Bro-N; smart01040 658172000562 Predicted nucleotide-binding protein containing TIR-like domain; Region: TIR-like; cl17861 658172000563 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 658172000564 linker region; other site 658172000565 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 658172000566 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 658172000567 D5 N terminal like; Region: D5_N; pfam08706 658172000568 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 658172000569 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 658172000570 Protein of unknown function (DUF2800); Region: DUF2800; pfam10926 658172000571 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 658172000572 Prophage antirepressor [Transcription]; Region: COG3617 658172000573 BRO family, N-terminal domain; Region: Bro-N; smart01040 658172000574 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 658172000575 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 658172000576 active site 658172000577 substrate binding site [chemical binding]; other site 658172000578 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 658172000579 active site 658172000580 DNA binding site [nucleotide binding] 658172000581 catalytic site [active] 658172000582 VRR-NUC domain; Region: VRR_NUC; pfam08774 658172000583 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 658172000584 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 658172000585 ATP binding site [chemical binding]; other site 658172000586 putative Mg++ binding site [ion binding]; other site 658172000587 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 658172000588 NAD-dependent DNA ligase LigA; Provisional; Region: ligA; PRK14351 658172000589 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 658172000590 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 658172000591 active site 658172000592 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 658172000593 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 658172000594 active site 658172000595 catalytic residues [active] 658172000596 DNA binding site [nucleotide binding] 658172000597 Int/Topo IB signature motif; other site 658172000598 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 658172000599 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 658172000600 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 658172000601 FAD binding domain; Region: FAD_binding_4; pfam01565 658172000602 recombination protein RecR; Reviewed; Region: recR; PRK00076 658172000603 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 658172000604 putative active site [active] 658172000605 putative metal-binding site [ion binding]; other site 658172000606 tetramer interface [polypeptide binding]; other site 658172000607 hypothetical protein; Validated; Region: PRK00153 658172000608 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 658172000609 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 658172000610 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 658172000611 Walker A motif; other site 658172000612 ATP binding site [chemical binding]; other site 658172000613 Walker B motif; other site 658172000614 arginine finger; other site 658172000615 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 658172000616 Bacterial SH3 domain; Region: SH3_4; pfam06347 658172000617 Bacterial SH3 domain; Region: SH3_4; pfam06347 658172000618 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 658172000619 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 658172000620 Ligand binding site; other site 658172000621 oligomer interface; other site 658172000622 recombination protein F; Reviewed; Region: recF; PRK00064 658172000623 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 658172000624 Walker A/P-loop; other site 658172000625 ATP binding site [chemical binding]; other site 658172000626 Q-loop/lid; other site 658172000627 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 658172000628 ABC transporter signature motif; other site 658172000629 Walker B; other site 658172000630 D-loop; other site 658172000631 H-loop/switch region; other site 658172000632 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 658172000633 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 658172000634 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 658172000635 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 658172000636 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 658172000637 active site 658172000638 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 658172000639 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 658172000640 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 658172000641 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 658172000642 trimer interface [polypeptide binding]; other site 658172000643 active site 658172000644 UDP-GlcNAc binding site [chemical binding]; other site 658172000645 lipid binding site [chemical binding]; lipid-binding site 658172000646 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 658172000647 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 658172000648 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 658172000649 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 658172000650 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 658172000651 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 658172000652 Surface antigen; Region: Bac_surface_Ag; pfam01103 658172000653 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 658172000654 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 658172000655 active site 658172000656 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 658172000657 protein binding site [polypeptide binding]; other site 658172000658 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 658172000659 putative substrate binding region [chemical binding]; other site 658172000660 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 658172000661 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 658172000662 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14834 658172000663 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 658172000664 catalytic residue [active] 658172000665 putative FPP diphosphate binding site; other site 658172000666 putative FPP binding hydrophobic cleft; other site 658172000667 dimer interface [polypeptide binding]; other site 658172000668 putative IPP diphosphate binding site; other site 658172000669 ribosome recycling factor; Reviewed; Region: frr; PRK00083 658172000670 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 658172000671 hinge region; other site 658172000672 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 658172000673 putative nucleotide binding site [chemical binding]; other site 658172000674 uridine monophosphate binding site [chemical binding]; other site 658172000675 homohexameric interface [polypeptide binding]; other site 658172000676 elongation factor Ts; Provisional; Region: tsf; PRK09377 658172000677 UBA/TS-N domain; Region: UBA; pfam00627 658172000678 Elongation factor TS; Region: EF_TS; pfam00889 658172000679 Elongation factor TS; Region: EF_TS; pfam00889 658172000680 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 658172000681 rRNA interaction site [nucleotide binding]; other site 658172000682 S8 interaction site; other site 658172000683 putative laminin-1 binding site; other site 658172000684 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 658172000685 HIT family signature motif; other site 658172000686 catalytic residue [active] 658172000687 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 658172000688 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 658172000689 trimer interface [polypeptide binding]; other site 658172000690 active site 658172000691 substrate binding site [chemical binding]; other site 658172000692 CoA binding site [chemical binding]; other site 658172000693 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 658172000694 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 658172000695 metal binding site [ion binding]; metal-binding site 658172000696 dimer interface [polypeptide binding]; other site 658172000697 Predicted transcriptional regulator [Transcription]; Region: COG4957 658172000698 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 658172000699 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 658172000700 RNase E interface [polypeptide binding]; other site 658172000701 trimer interface [polypeptide binding]; other site 658172000702 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 658172000703 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 658172000704 RNase E interface [polypeptide binding]; other site 658172000705 trimer interface [polypeptide binding]; other site 658172000706 active site 658172000707 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 658172000708 putative nucleic acid binding region [nucleotide binding]; other site 658172000709 G-X-X-G motif; other site 658172000710 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 658172000711 RNA binding site [nucleotide binding]; other site 658172000712 domain interface; other site 658172000713 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 658172000714 16S/18S rRNA binding site [nucleotide binding]; other site 658172000715 S13e-L30e interaction site [polypeptide binding]; other site 658172000716 25S rRNA binding site [nucleotide binding]; other site 658172000717 Ribosome-binding factor A; Region: RBFA; cl00542 658172000718 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 658172000719 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 658172000720 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 658172000721 G1 box; other site 658172000722 putative GEF interaction site [polypeptide binding]; other site 658172000723 GTP/Mg2+ binding site [chemical binding]; other site 658172000724 Switch I region; other site 658172000725 G2 box; other site 658172000726 G3 box; other site 658172000727 Switch II region; other site 658172000728 G4 box; other site 658172000729 G5 box; other site 658172000730 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 658172000731 Translation-initiation factor 2; Region: IF-2; pfam11987 658172000732 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 658172000733 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 658172000734 NusA N-terminal domain; Region: NusA_N; pfam08529 658172000735 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 658172000736 RNA binding site [nucleotide binding]; other site 658172000737 homodimer interface [polypeptide binding]; other site 658172000738 NusA-like KH domain; Region: KH_5; pfam13184 658172000739 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 658172000740 G-X-X-G motif; other site 658172000741 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 658172000742 ribosome maturation protein RimP; Reviewed; Region: PRK00092 658172000743 Sm and related proteins; Region: Sm_like; cl00259 658172000744 heptamer interface [polypeptide binding]; other site 658172000745 Sm1 motif; other site 658172000746 hexamer interface [polypeptide binding]; other site 658172000747 RNA binding site [nucleotide binding]; other site 658172000748 Sm2 motif; other site 658172000749 GtrA-like protein; Region: GtrA; pfam04138 658172000750 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 658172000751 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 658172000752 generic binding surface II; other site 658172000753 generic binding surface I; other site 658172000754 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 658172000755 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 658172000756 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 658172000757 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 658172000758 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 658172000759 active site 658172000760 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 658172000761 HIGH motif; other site 658172000762 dimer interface [polypeptide binding]; other site 658172000763 KMSKS motif; other site 658172000764 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 658172000765 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 658172000766 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 658172000767 putative active site [active] 658172000768 putative substrate binding site [chemical binding]; other site 658172000769 ATP binding site [chemical binding]; other site 658172000770 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 658172000771 RNA/DNA hybrid binding site [nucleotide binding]; other site 658172000772 active site 658172000773 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 658172000774 putative catalytic site [active] 658172000775 putative metal binding site [ion binding]; other site 658172000776 putative phosphate binding site [ion binding]; other site 658172000777 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 658172000778 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 658172000779 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 658172000780 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 658172000781 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 658172000782 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 658172000783 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 658172000784 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 658172000785 catalytic residue [active] 658172000786 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 658172000787 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 658172000788 HIGH motif; other site 658172000789 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 658172000790 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 658172000791 active site 658172000792 KMSKS motif; other site 658172000793 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 658172000794 tRNA binding surface [nucleotide binding]; other site 658172000795 Lipopolysaccharide-assembly; Region: LptE; cl01125 658172000796 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 658172000797 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 658172000798 ParB-like nuclease domain; Region: ParBc; pfam02195 658172000799 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 658172000800 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 658172000801 P-loop; other site 658172000802 Magnesium ion binding site [ion binding]; other site 658172000803 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 658172000804 Magnesium ion binding site [ion binding]; other site 658172000805 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 658172000806 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 658172000807 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 658172000808 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 658172000809 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 658172000810 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 658172000811 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 658172000812 trmE is a tRNA modification GTPase; Region: trmE; cd04164 658172000813 G1 box; other site 658172000814 GTP/Mg2+ binding site [chemical binding]; other site 658172000815 Switch I region; other site 658172000816 G2 box; other site 658172000817 Switch II region; other site 658172000818 G3 box; other site 658172000819 G4 box; other site 658172000820 G5 box; other site 658172000821 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 658172000822 transcription termination factor Rho; Provisional; Region: rho; PRK09376 658172000823 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 658172000824 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 658172000825 RNA binding site [nucleotide binding]; other site 658172000826 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 658172000827 multimer interface [polypeptide binding]; other site 658172000828 Walker A motif; other site 658172000829 ATP binding site [chemical binding]; other site 658172000830 Walker B motif; other site 658172000831 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 658172000832 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 658172000833 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 658172000834 substrate binding site [chemical binding]; other site 658172000835 active site 658172000836 Maf-like protein; Region: Maf; pfam02545 658172000837 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 658172000838 active site 658172000839 dimer interface [polypeptide binding]; other site 658172000840 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 658172000841 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 658172000842 Mg2+ binding site [ion binding]; other site 658172000843 G-X-G motif; other site 658172000844 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 658172000845 anchoring element; other site 658172000846 dimer interface [polypeptide binding]; other site 658172000847 ATP binding site [chemical binding]; other site 658172000848 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 658172000849 active site 658172000850 putative metal-binding site [ion binding]; other site 658172000851 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 658172000852 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 658172000853 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 658172000854 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 658172000855 active site 658172000856 catalytic site [active] 658172000857 substrate binding site [chemical binding]; other site 658172000858 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 658172000859 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 658172000860 CoA-binding site [chemical binding]; other site 658172000861 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 658172000862 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 658172000863 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 658172000864 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 658172000865 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 658172000866 catalytic residues [active] 658172000867 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 658172000868 Part of AAA domain; Region: AAA_19; pfam13245 658172000869 Family description; Region: UvrD_C_2; pfam13538 658172000870 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 658172000871 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 658172000872 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 658172000873 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 658172000874 PAS fold; Region: PAS_7; pfam12860 658172000875 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 658172000876 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 658172000877 dimer interface [polypeptide binding]; other site 658172000878 phosphorylation site [posttranslational modification] 658172000879 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 658172000880 ATP binding site [chemical binding]; other site 658172000881 Mg2+ binding site [ion binding]; other site 658172000882 G-X-G motif; other site 658172000883 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_ATP; cd00484 658172000884 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 658172000885 active site 658172000886 substrate-binding site [chemical binding]; other site 658172000887 metal-binding site [ion binding] 658172000888 ATP binding site [chemical binding]; other site 658172000889 pantothenate kinase; Provisional; Region: PRK05439 658172000890 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 658172000891 ATP-binding site [chemical binding]; other site 658172000892 CoA-binding site [chemical binding]; other site 658172000893 Mg2+-binding site [ion binding]; other site 658172000894 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 658172000895 active site 658172000896 HslU subunit interaction site [polypeptide binding]; other site 658172000897 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 658172000898 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 658172000899 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 658172000900 Walker A motif; other site 658172000901 ATP binding site [chemical binding]; other site 658172000902 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 658172000903 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 658172000904 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK05963 658172000905 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 658172000906 dimer interface [polypeptide binding]; other site 658172000907 active site 658172000908 CoA binding pocket [chemical binding]; other site 658172000909 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 658172000910 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 658172000911 inhibitor-cofactor binding pocket; inhibition site 658172000912 pyridoxal 5'-phosphate binding site [chemical binding]; other site 658172000913 catalytic residue [active] 658172000914 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 658172000915 AAA domain; Region: AAA_26; pfam13500 658172000916 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 658172000917 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 658172000918 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 658172000919 catalytic residue [active] 658172000920 biotin synthase; Region: bioB; TIGR00433 658172000921 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 658172000922 FeS/SAM binding site; other site 658172000923 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 658172000924 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 658172000925 feedback inhibition sensing region; other site 658172000926 homohexameric interface [polypeptide binding]; other site 658172000927 nucleotide binding site [chemical binding]; other site 658172000928 N-acetyl-L-glutamate binding site [chemical binding]; other site 658172000929 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 658172000930 G1 box; other site 658172000931 GTP/Mg2+ binding site [chemical binding]; other site 658172000932 Switch I region; other site 658172000933 G2 box; other site 658172000934 G3 box; other site 658172000935 Switch II region; other site 658172000936 G4 box; other site 658172000937 G5 box; other site 658172000938 membrane protein insertase; Provisional; Region: PRK01318 658172000939 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 658172000940 ribonuclease P; Reviewed; Region: rnpA; PRK01313 658172000941 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 658172000942 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 658172000943 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 658172000944 trimer interface [polypeptide binding]; other site 658172000945 active site 658172000946 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 658172000947 trimer interface [polypeptide binding]; other site 658172000948 active site 658172000949 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 658172000950 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 658172000951 minor groove reading motif; other site 658172000952 helix-hairpin-helix signature motif; other site 658172000953 substrate binding pocket [chemical binding]; other site 658172000954 active site 658172000955 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 658172000956 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 658172000957 DNA binding and oxoG recognition site [nucleotide binding] 658172000958 Protein of unknown function (DUF721); Region: DUF721; cl02324 658172000959 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 658172000960 Thioredoxin; Region: Thioredoxin_4; pfam13462 658172000961 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 658172000962 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 658172000963 active site 658172000964 phosphorylation site [posttranslational modification] 658172000965 intermolecular recognition site; other site 658172000966 dimerization interface [polypeptide binding]; other site 658172000967 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 658172000968 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 658172000969 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 658172000970 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 658172000971 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 658172000972 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 658172000973 D-pathway; other site 658172000974 Putative ubiquinol binding site [chemical binding]; other site 658172000975 Low-spin heme (heme b) binding site [chemical binding]; other site 658172000976 Putative water exit pathway; other site 658172000977 Binuclear center (heme o3/CuB) [ion binding]; other site 658172000978 K-pathway; other site 658172000979 Putative proton exit pathway; other site 658172000980 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 658172000981 Subunit I/III interface [polypeptide binding]; other site 658172000982 Subunit III/IV interface [polypeptide binding]; other site 658172000983 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 658172000984 translation initiation factor IF-1; Validated; Region: infA; PRK00276 658172000985 RNA binding site [nucleotide binding]; other site 658172000986 Domain of unknown function (DUF329); Region: DUF329; cl01144 658172000987 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 658172000988 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 658172000989 PAS fold; Region: PAS_3; pfam08447 658172000990 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 658172000991 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 658172000992 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 658172000993 metal binding site [ion binding]; metal-binding site 658172000994 active site 658172000995 I-site; other site 658172000996 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 658172000997 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 658172000998 hypothetical protein; Reviewed; Region: PRK12497 658172000999 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 658172001000 DNA methylase; Region: N6_N4_Mtase; pfam01555 658172001001 Fe2+ transport protein; Region: Iron_transport; pfam10634 658172001002 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 658172001003 Iron permease FTR1 family; Region: FTR1; cl00475 658172001004 Predicted periplasmic lipoprotein involved in iron transport [Inorganic ion transport and metabolism]; Region: COG2822 658172001005 Imelysin; Region: Peptidase_M75; cl09159 658172001006 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 658172001007 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 658172001008 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 658172001009 pyridoxal 5'-phosphate binding site [chemical binding]; other site 658172001010 catalytic residue [active] 658172001011 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 658172001012 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 658172001013 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 658172001014 ribonuclease Y; Region: RNase_Y; TIGR03319 658172001015 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 658172001016 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 658172001017 NAD binding site [chemical binding]; other site 658172001018 homotetramer interface [polypeptide binding]; other site 658172001019 homodimer interface [polypeptide binding]; other site 658172001020 substrate binding site [chemical binding]; other site 658172001021 active site 658172001022 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 658172001023 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 658172001024 dimer interface [polypeptide binding]; other site 658172001025 active site 658172001026 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 658172001027 active site 1 [active] 658172001028 dimer interface [polypeptide binding]; other site 658172001029 active site 2 [active] 658172001030 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 658172001031 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 658172001032 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 658172001033 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 658172001034 putative active site [active] 658172001035 cytidylate kinase; Provisional; Region: cmk; PRK00023 658172001036 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 658172001037 CMP-binding site; other site 658172001038 The sites determining sugar specificity; other site 658172001039 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 658172001040 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 658172001041 RNA binding site [nucleotide binding]; other site 658172001042 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 658172001043 RNA binding site [nucleotide binding]; other site 658172001044 S1_RPS1_repeat_ec3: 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_ec3; cd05688 658172001045 RNA binding site [nucleotide binding]; other site 658172001046 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 658172001047 RNA binding site [nucleotide binding]; other site 658172001048 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 658172001049 RNA binding site [nucleotide binding]; other site 658172001050 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 658172001051 RNA binding site [nucleotide binding]; other site 658172001052 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 658172001053 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 658172001054 active site 658172001055 DNA polymerase III subunit beta; Validated; Region: PRK05643 658172001056 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 658172001057 putative DNA binding surface [nucleotide binding]; other site 658172001058 dimer interface [polypeptide binding]; other site 658172001059 beta-clamp/clamp loader binding surface; other site 658172001060 beta-clamp/translesion DNA polymerase binding surface; other site 658172001061 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 658172001062 active site 658172001063 dimer interface [polypeptide binding]; other site 658172001064 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 658172001065 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 658172001066 aconitate hydratase; Validated; Region: PRK09277 658172001067 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 658172001068 substrate binding site [chemical binding]; other site 658172001069 ligand binding site [chemical binding]; other site 658172001070 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 658172001071 substrate binding site [chemical binding]; other site 658172001072 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 658172001073 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 658172001074 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 658172001075 dimer interface [polypeptide binding]; other site 658172001076 phosphorylation site [posttranslational modification] 658172001077 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 658172001078 ATP binding site [chemical binding]; other site 658172001079 Mg2+ binding site [ion binding]; other site 658172001080 G-X-G motif; other site 658172001081 Response regulator receiver domain; Region: Response_reg; pfam00072 658172001082 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 658172001083 active site 658172001084 phosphorylation site [posttranslational modification] 658172001085 intermolecular recognition site; other site 658172001086 dimerization interface [polypeptide binding]; other site 658172001087 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 658172001088 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 658172001089 active site 658172001090 HIGH motif; other site 658172001091 nucleotide binding site [chemical binding]; other site 658172001092 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 658172001093 active site 658172001094 KMSKS motif; other site 658172001095 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 658172001096 tRNA binding surface [nucleotide binding]; other site 658172001097 anticodon binding site; other site 658172001098 Predicted transcriptional regulator [Transcription]; Region: COG2932 658172001099 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 658172001100 Catalytic site [active] 658172001101 Protein of unknown function (DUF1036); Region: DUF1036; pfam06282 658172001102 pyruvate kinase; Provisional; Region: PRK06247 658172001103 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 658172001104 domain interfaces; other site 658172001105 active site 658172001106 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 658172001107 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 658172001108 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 658172001109 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 658172001110 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 658172001111 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 658172001112 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 658172001113 ATP-grasp domain; Region: ATP-grasp_4; cl17255 658172001114 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 658172001115 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 658172001116 ATP-grasp domain; Region: ATP-grasp_4; cl17255 658172001117 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 658172001118 IMP binding site; other site 658172001119 dimer interface [polypeptide binding]; other site 658172001120 interdomain contacts; other site 658172001121 partial ornithine binding site; other site 658172001122 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 658172001123 active site 658172001124 hydrophilic channel; other site 658172001125 dimerization interface [polypeptide binding]; other site 658172001126 catalytic residues [active] 658172001127 active site lid [active] 658172001128 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 658172001129 TPR repeat; Region: TPR_11; pfam13414 658172001130 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 658172001131 binding surface 658172001132 TPR motif; other site 658172001133 TPR repeat; Region: TPR_11; pfam13414 658172001134 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 658172001135 binding surface 658172001136 TPR repeat; Region: TPR_11; pfam13414 658172001137 TPR motif; other site 658172001138 TPR repeat; Region: TPR_11; pfam13414 658172001139 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 658172001140 binding surface 658172001141 TPR motif; other site 658172001142 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 658172001143 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 658172001144 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 658172001145 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 658172001146 active site 658172001147 catalytic residues [active] 658172001148 FMN binding site [chemical binding]; other site 658172001149 quinone interaction residues [chemical binding]; other site 658172001150 substrate binding site [chemical binding]; other site 658172001151 ornithine carbamoyltransferase; Provisional; Region: PRK00779 658172001152 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 658172001153 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 658172001154 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 658172001155 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 658172001156 inhibitor-cofactor binding pocket; inhibition site 658172001157 pyridoxal 5'-phosphate binding site [chemical binding]; other site 658172001158 catalytic residue [active] 658172001159 GcrA cell cycle regulator; Region: GcrA; cl11564 658172001160 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 658172001161 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 658172001162 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 658172001163 Glycoprotease family; Region: Peptidase_M22; pfam00814 658172001164 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 658172001165 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 658172001166 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 658172001167 FeS/SAM binding site; other site 658172001168 TRAM domain; Region: TRAM; pfam01938 658172001169 metal-binding heat shock protein; Provisional; Region: PRK00016 658172001170 FOG: CBS domain [General function prediction only]; Region: COG0517 658172001171 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 658172001172 Transporter associated domain; Region: CorC_HlyC; smart01091 658172001173 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 658172001174 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 658172001175 putative active site [active] 658172001176 putative dimer interface [polypeptide binding]; other site 658172001177 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 658172001178 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 658172001179 non-specific DNA binding site [nucleotide binding]; other site 658172001180 salt bridge; other site 658172001181 sequence-specific DNA binding site [nucleotide binding]; other site 658172001182 S-adenosylmethionine synthetase; Validated; Region: PRK05250 658172001183 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 658172001184 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 658172001185 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 658172001186 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 658172001187 S-adenosylmethionine binding site [chemical binding]; other site 658172001188 GTP-binding protein Der; Reviewed; Region: PRK00093 658172001189 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 658172001190 Switch I region; other site 658172001191 G2 box; other site 658172001192 Switch II region; other site 658172001193 G3 box; other site 658172001194 GTP/Mg2+ binding site [chemical binding]; other site 658172001195 G4 box; other site 658172001196 G5 box; other site 658172001197 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 658172001198 G1 box; other site 658172001199 GTP/Mg2+ binding site [chemical binding]; other site 658172001200 Switch I region; other site 658172001201 G2 box; other site 658172001202 G3 box; other site 658172001203 Switch II region; other site 658172001204 G4 box; other site 658172001205 G5 box; other site 658172001206 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 658172001207 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 658172001208 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 658172001209 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 658172001210 catalytic site [active] 658172001211 subunit interface [polypeptide binding]; other site 658172001212 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 658172001213 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 658172001214 dimer interface [polypeptide binding]; other site 658172001215 anticodon binding site; other site 658172001216 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 658172001217 homodimer interface [polypeptide binding]; other site 658172001218 motif 1; other site 658172001219 active site 658172001220 motif 2; other site 658172001221 GAD domain; Region: GAD; pfam02938 658172001222 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 658172001223 active site 658172001224 motif 3; other site 658172001225 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 658172001226 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 658172001227 5S rRNA interface [nucleotide binding]; other site 658172001228 CTC domain interface [polypeptide binding]; other site 658172001229 L16 interface [polypeptide binding]; other site 658172001230 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 658172001231 Ferredoxin [Energy production and conversion]; Region: COG1146 658172001232 4Fe-4S binding domain; Region: Fer4; pfam00037 658172001233 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 658172001234 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 658172001235 FOG: CBS domain [General function prediction only]; Region: COG0517 658172001236 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 658172001237 Transporter associated domain; Region: CorC_HlyC; smart01091 658172001238 GMP synthase; Reviewed; Region: guaA; PRK00074 658172001239 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 658172001240 AMP/PPi binding site [chemical binding]; other site 658172001241 candidate oxyanion hole; other site 658172001242 catalytic triad [active] 658172001243 potential glutamine specificity residues [chemical binding]; other site 658172001244 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 658172001245 ATP Binding subdomain [chemical binding]; other site 658172001246 Ligand Binding sites [chemical binding]; other site 658172001247 Dimerization subdomain; other site 658172001248 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 658172001249 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 658172001250 putative active site [active] 658172001251 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 658172001252 dimer interface [polypeptide binding]; other site 658172001253 phosphorylation site [posttranslational modification] 658172001254 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 658172001255 ATP binding site [chemical binding]; other site 658172001256 Mg2+ binding site [ion binding]; other site 658172001257 G-X-G motif; other site 658172001258 Membrane fusogenic activity; Region: BMFP; cl01115 658172001259 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 658172001260 Uncharacterized conserved protein [Function unknown]; Region: COG1565 658172001261 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 658172001262 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 658172001263 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 658172001264 active site 658172001265 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 658172001266 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 658172001267 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 658172001268 putative RNA binding site [nucleotide binding]; other site 658172001269 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 658172001270 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 658172001271 S-adenosylmethionine binding site [chemical binding]; other site 658172001272 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 658172001273 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 658172001274 purine monophosphate binding site [chemical binding]; other site 658172001275 dimer interface [polypeptide binding]; other site 658172001276 putative catalytic residues [active] 658172001277 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 658172001278 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 658172001279 active site clefts [active] 658172001280 zinc binding site [ion binding]; other site 658172001281 dimer interface [polypeptide binding]; other site 658172001282 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 658172001283 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 658172001284 exonuclease I; Provisional; Region: sbcB; PRK11779 658172001285 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 658172001286 active site 658172001287 catalytic site [active] 658172001288 substrate binding site [chemical binding]; other site 658172001289 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 658172001290 hypothetical protein; Validated; Region: PRK00110 658172001291 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 658172001292 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 658172001293 putative active site [active] 658172001294 metal binding site [ion binding]; metal-binding site 658172001295 homodimer binding site [polypeptide binding]; other site 658172001296 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 658172001297 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 658172001298 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 658172001299 TPP-binding site [chemical binding]; other site 658172001300 dimer interface [polypeptide binding]; other site 658172001301 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 658172001302 PYR/PP interface [polypeptide binding]; other site 658172001303 dimer interface [polypeptide binding]; other site 658172001304 TPP binding site [chemical binding]; other site 658172001305 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 658172001306 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 658172001307 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 658172001308 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 658172001309 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 658172001310 Phosphoglycerate kinase; Region: PGK; pfam00162 658172001311 substrate binding site [chemical binding]; other site 658172001312 hinge regions; other site 658172001313 ADP binding site [chemical binding]; other site 658172001314 catalytic site [active] 658172001315 Class I aldolases; Region: Aldolase_Class_I; cl17187 658172001316 catalytic residue [active] 658172001317 Protein of unknown function (DUF1465); Region: DUF1465; cl11562 658172001318 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 658172001319 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 658172001320 active site 658172001321 (T/H)XGH motif; other site 658172001322 GTPase CgtA; Reviewed; Region: obgE; PRK12299 658172001323 GTP1/OBG; Region: GTP1_OBG; pfam01018 658172001324 Obg GTPase; Region: Obg; cd01898 658172001325 G1 box; other site 658172001326 GTP/Mg2+ binding site [chemical binding]; other site 658172001327 Switch I region; other site 658172001328 G2 box; other site 658172001329 G3 box; other site 658172001330 Switch II region; other site 658172001331 G4 box; other site 658172001332 G5 box; other site 658172001333 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 658172001334 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 658172001335 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 658172001336 chaperone protein DnaJ; Provisional; Region: PRK10767 658172001337 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 658172001338 HSP70 interaction site [polypeptide binding]; other site 658172001339 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 658172001340 substrate binding site [polypeptide binding]; other site 658172001341 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 658172001342 Zn binding sites [ion binding]; other site 658172001343 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 658172001344 dimer interface [polypeptide binding]; other site 658172001345 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 658172001346 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 658172001347 nucleotide binding site [chemical binding]; other site 658172001348 NEF interaction site [polypeptide binding]; other site 658172001349 SBD interface [polypeptide binding]; other site 658172001350 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 658172001351 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 658172001352 catalytic site [active] 658172001353 putative active site [active] 658172001354 putative substrate binding site [chemical binding]; other site 658172001355 Imelysin; Region: Peptidase_M75; cl09159 658172001356 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 658172001357 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 658172001358 active site 658172001359 tetramer interface; other site 658172001360 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 658172001361 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 658172001362 FAD binding pocket [chemical binding]; other site 658172001363 FAD binding motif [chemical binding]; other site 658172001364 phosphate binding motif [ion binding]; other site 658172001365 beta-alpha-beta structure motif; other site 658172001366 NAD binding pocket [chemical binding]; other site 658172001367 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 658172001368 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 658172001369 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 658172001370 UbiA prenyltransferase family; Region: UbiA; pfam01040 658172001371 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 658172001372 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 658172001373 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 658172001374 nucleoside/Zn binding site; other site 658172001375 dimer interface [polypeptide binding]; other site 658172001376 catalytic motif [active] 658172001377 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 658172001378 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 658172001379 RNA binding surface [nucleotide binding]; other site 658172001380 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 658172001381 active site 658172001382 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 658172001383 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 658172001384 S-adenosylmethionine binding site [chemical binding]; other site 658172001385 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 658172001386 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 658172001387 active site 658172001388 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 658172001389 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 658172001390 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 658172001391 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 658172001392 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 658172001393 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3908 658172001394 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 658172001395 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 658172001396 ATP binding site [chemical binding]; other site 658172001397 Mg2+ binding site [ion binding]; other site 658172001398 G-X-G motif; other site 658172001399 DNA mismatch repair protein, C-terminal domain; Region: DNA_mis_repair; pfam01119 658172001400 ATP binding site [chemical binding]; other site 658172001401 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 658172001402 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 658172001403 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 658172001404 S-adenosylmethionine binding site [chemical binding]; other site 658172001405 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 658172001406 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 658172001407 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 658172001408 Organic solvent tolerance protein; Region: OstA_C; pfam04453 658172001409 Predicted permeases [General function prediction only]; Region: COG0795 658172001410 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 658172001411 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 658172001412 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 658172001413 multifunctional aminopeptidase A; Provisional; Region: PRK00913 658172001414 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 658172001415 interface (dimer of trimers) [polypeptide binding]; other site 658172001416 Substrate-binding/catalytic site; other site 658172001417 Zn-binding sites [ion binding]; other site 658172001418 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 658172001419 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 658172001420 active site 658172001421 multimer interface [polypeptide binding]; other site 658172001422 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 658172001423 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 658172001424 metal ion-dependent adhesion site (MIDAS); other site 658172001425 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 658172001426 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 658172001427 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 658172001428 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 658172001429 HlyD family secretion protein; Region: HlyD_3; pfam13437 658172001430 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 658172001431 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 658172001432 Walker A/P-loop; other site 658172001433 ATP binding site [chemical binding]; other site 658172001434 Q-loop/lid; other site 658172001435 ABC transporter signature motif; other site 658172001436 Walker B; other site 658172001437 D-loop; other site 658172001438 H-loop/switch region; other site 658172001439 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 658172001440 active site 658172001441 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 658172001442 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 658172001443 endonuclease III; Region: ENDO3c; smart00478 658172001444 minor groove reading motif; other site 658172001445 helix-hairpin-helix signature motif; other site 658172001446 substrate binding pocket [chemical binding]; other site 658172001447 active site 658172001448 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 658172001449 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 658172001450 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 658172001451 ATP binding site [chemical binding]; other site 658172001452 Mg++ binding site [ion binding]; other site 658172001453 motif III; other site 658172001454 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 658172001455 nucleotide binding region [chemical binding]; other site 658172001456 ATP-binding site [chemical binding]; other site 658172001457 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 658172001458 Peptidase family M23; Region: Peptidase_M23; pfam01551 658172001459 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 658172001460 seryl-tRNA synthetase; Provisional; Region: PRK05431 658172001461 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 658172001462 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 658172001463 dimer interface [polypeptide binding]; other site 658172001464 active site 658172001465 motif 1; other site 658172001466 motif 2; other site 658172001467 motif 3; other site 658172001468 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 658172001469 putative coenzyme Q binding site [chemical binding]; other site 658172001470 lipoyl synthase; Provisional; Region: PRK05481 658172001471 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 658172001472 FeS/SAM binding site; other site 658172001473 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 658172001474 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 658172001475 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 658172001476 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 658172001477 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 658172001478 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 658172001479 E3 interaction surface; other site 658172001480 lipoyl attachment site [posttranslational modification]; other site 658172001481 e3 binding domain; Region: E3_binding; pfam02817 658172001482 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 658172001483 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 658172001484 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 658172001485 E3 interaction surface; other site 658172001486 lipoyl attachment site [posttranslational modification]; other site 658172001487 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 658172001488 alpha subunit interface [polypeptide binding]; other site 658172001489 TPP binding site [chemical binding]; other site 658172001490 heterodimer interface [polypeptide binding]; other site 658172001491 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 658172001492 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 658172001493 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 658172001494 tetramer interface [polypeptide binding]; other site 658172001495 TPP-binding site [chemical binding]; other site 658172001496 heterodimer interface [polypeptide binding]; other site 658172001497 phosphorylation loop region [posttranslational modification] 658172001498 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 658172001499 Septum formation initiator; Region: DivIC; cl17659 658172001500 enolase; Provisional; Region: eno; PRK00077 658172001501 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 658172001502 dimer interface [polypeptide binding]; other site 658172001503 metal binding site [ion binding]; metal-binding site 658172001504 substrate binding pocket [chemical binding]; other site 658172001505 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 658172001506 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 658172001507 LexA repressor; Validated; Region: PRK00215 658172001508 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 658172001509 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 658172001510 Catalytic site [active] 658172001511 potential frameshift: common BLAST hit: gi|150396364|ref|YP_001326831.1| ComEC/Rec2-related protein 658172001512 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 658172001513 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 658172001514 dimer interface [polypeptide binding]; other site 658172001515 active site 658172001516 citrylCoA binding site [chemical binding]; other site 658172001517 NADH binding [chemical binding]; other site 658172001518 cationic pore residues; other site 658172001519 oxalacetate/citrate binding site [chemical binding]; other site 658172001520 coenzyme A binding site [chemical binding]; other site 658172001521 catalytic triad [active] 658172001522 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 658172001523 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 658172001524 CAP-like domain; other site 658172001525 active site 658172001526 primary dimer interface [polypeptide binding]; other site 658172001527 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 658172001528 dimer interface [polypeptide binding]; other site 658172001529 allosteric magnesium binding site [ion binding]; other site 658172001530 active site 658172001531 aspartate-rich active site metal binding site; other site 658172001532 Schiff base residues; other site 658172001533 Transcriptional regulators [Transcription]; Region: MarR; COG1846 658172001534 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 658172001535 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 658172001536 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 658172001537 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 658172001538 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 658172001539 dimer interface [polypeptide binding]; other site 658172001540 active site 658172001541 glycine-pyridoxal phosphate binding site [chemical binding]; other site 658172001542 folate binding site [chemical binding]; other site 658172001543 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 658172001544 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 658172001545 catalytic motif [active] 658172001546 Zn binding site [ion binding]; other site 658172001547 RibD C-terminal domain; Region: RibD_C; cl17279 658172001548 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 658172001549 Lumazine binding domain; Region: Lum_binding; pfam00677 658172001550 Lumazine binding domain; Region: Lum_binding; pfam00677 658172001551 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 658172001552 homopentamer interface [polypeptide binding]; other site 658172001553 active site 658172001554 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 658172001555 putative RNA binding site [nucleotide binding]; other site 658172001556 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 658172001557 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 658172001558 Cation efflux family; Region: Cation_efflux; pfam01545 658172001559 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 658172001560 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 658172001561 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 658172001562 dimer interface [polypeptide binding]; other site 658172001563 conserved gate region; other site 658172001564 putative PBP binding loops; other site 658172001565 ABC-ATPase subunit interface; other site 658172001566 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 658172001567 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 658172001568 Walker A/P-loop; other site 658172001569 ATP binding site [chemical binding]; other site 658172001570 Q-loop/lid; other site 658172001571 ABC transporter signature motif; other site 658172001572 Walker B; other site 658172001573 D-loop; other site 658172001574 H-loop/switch region; other site 658172001575 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 658172001576 classical (c) SDRs; Region: SDR_c; cd05233 658172001577 NAD(P) binding site [chemical binding]; other site 658172001578 active site 658172001579 amidophosphoribosyltransferase; Provisional; Region: PRK09123 658172001580 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 658172001581 active site 658172001582 tetramer interface [polypeptide binding]; other site 658172001583 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 658172001584 active site 658172001585 Colicin V production protein; Region: Colicin_V; pfam02674 658172001586 DNA repair protein RadA; Provisional; Region: PRK11823 658172001587 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 658172001588 Walker A motif; other site 658172001589 ATP binding site [chemical binding]; other site 658172001590 Walker B motif; other site 658172001591 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 658172001592 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 658172001593 active site 658172001594 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 658172001595 dimer interface [polypeptide binding]; other site 658172001596 substrate binding site [chemical binding]; other site 658172001597 catalytic residues [active] 658172001598 replicative DNA helicase; Provisional; Region: PRK09165 658172001599 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 658172001600 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 658172001601 Walker A motif; other site 658172001602 ATP binding site [chemical binding]; other site 658172001603 Walker B motif; other site 658172001604 DNA binding loops [nucleotide binding] 658172001605 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 658172001606 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 658172001607 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 658172001608 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 658172001609 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 658172001610 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 658172001611 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 658172001612 NAD binding site [chemical binding]; other site 658172001613 homodimer interface [polypeptide binding]; other site 658172001614 active site 658172001615 substrate binding site [chemical binding]; other site 658172001616 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 658172001617 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 658172001618 SEC-C motif; Region: SEC-C; pfam02810 658172001619 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 658172001620 heterotetramer interface [polypeptide binding]; other site 658172001621 active site pocket [active] 658172001622 cleavage site 658172001623 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 658172001624 active site 658172001625 8-oxo-dGMP binding site [chemical binding]; other site 658172001626 nudix motif; other site 658172001627 metal binding site [ion binding]; metal-binding site 658172001628 TLC ATP/ADP transporter; Region: TLC; pfam03219 658172001629 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 658172001630 GTP-binding protein LepA; Provisional; Region: PRK05433 658172001631 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 658172001632 G1 box; other site 658172001633 putative GEF interaction site [polypeptide binding]; other site 658172001634 GTP/Mg2+ binding site [chemical binding]; other site 658172001635 Switch I region; other site 658172001636 G2 box; other site 658172001637 G3 box; other site 658172001638 Switch II region; other site 658172001639 G4 box; other site 658172001640 G5 box; other site 658172001641 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 658172001642 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 658172001643 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 658172001644 translation initiation factor IF-3; Region: infC; TIGR00168 658172001645 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 658172001646 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 658172001647 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 658172001648 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 658172001649 23S rRNA binding site [nucleotide binding]; other site 658172001650 L21 binding site [polypeptide binding]; other site 658172001651 L13 binding site [polypeptide binding]; other site 658172001652 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 658172001653 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 658172001654 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 658172001655 dimer interface [polypeptide binding]; other site 658172001656 motif 1; other site 658172001657 active site 658172001658 motif 2; other site 658172001659 motif 3; other site 658172001660 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 658172001661 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 658172001662 putative tRNA-binding site [nucleotide binding]; other site 658172001663 B3/4 domain; Region: B3_4; pfam03483 658172001664 tRNA synthetase B5 domain; Region: B5; smart00874 658172001665 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 658172001666 dimer interface [polypeptide binding]; other site 658172001667 motif 1; other site 658172001668 motif 3; other site 658172001669 motif 2; other site 658172001670 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 658172001671 Porin subfamily; Region: Porin_2; pfam02530 658172001672 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 658172001673 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 658172001674 S-adenosylmethionine binding site [chemical binding]; other site 658172001675 Response regulator receiver domain; Region: Response_reg; pfam00072 658172001676 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 658172001677 active site 658172001678 phosphorylation site [posttranslational modification] 658172001679 intermolecular recognition site; other site 658172001680 dimerization interface [polypeptide binding]; other site 658172001681 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 658172001682 catalytic triad [active] 658172001683 dimer interface [polypeptide binding]; other site 658172001684 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 658172001685 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 658172001686 active site 658172001687 Transglycosylase SLT domain; Region: SLT_2; pfam13406 658172001688 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 658172001689 N-acetyl-D-glucosamine binding site [chemical binding]; other site 658172001690 catalytic residue [active] 658172001691 Transglycosylase SLT domain; Region: SLT_2; pfam13406 658172001692 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 658172001693 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 658172001694 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 658172001695 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 658172001696 active site 658172001697 interdomain interaction site; other site 658172001698 putative metal-binding site [ion binding]; other site 658172001699 nucleotide binding site [chemical binding]; other site 658172001700 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 658172001701 domain I; other site 658172001702 DNA binding groove [nucleotide binding] 658172001703 phosphate binding site [ion binding]; other site 658172001704 domain II; other site 658172001705 domain III; other site 658172001706 nucleotide binding site [chemical binding]; other site 658172001707 catalytic site [active] 658172001708 domain IV; other site 658172001709 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 658172001710 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 658172001711 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 658172001712 DNA protecting protein DprA; Region: dprA; TIGR00732 658172001713 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 658172001714 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 658172001715 dihydroorotase; Validated; Region: PRK09059 658172001716 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 658172001717 active site 658172001718 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 658172001719 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 658172001720 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 658172001721 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 658172001722 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 658172001723 active site 658172001724 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 658172001725 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 658172001726 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 658172001727 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 658172001728 ligand binding site [chemical binding]; other site 658172001729 chemotaxis protein; Reviewed; Region: PRK12798 658172001730 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 658172001731 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 658172001732 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; cl17355 658172001733 DNA binding site [nucleotide binding] 658172001734 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 658172001735 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 658172001736 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 658172001737 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 658172001738 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 658172001739 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 658172001740 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 658172001741 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 658172001742 Flagellar protein FlaF; Region: FlaF; cl11454 658172001743 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12793 658172001744 Flagellar protein FlbT; Region: FlbT; cl11455 658172001745 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06009 658172001746 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 658172001747 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 658172001748 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 658172001749 FHIPEP family; Region: FHIPEP; pfam00771 658172001750 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 658172001751 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 658172001752 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 658172001753 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 658172001754 homodimer interface [polypeptide binding]; other site 658172001755 NADP binding site [chemical binding]; other site 658172001756 substrate binding site [chemical binding]; other site 658172001757 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 658172001758 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 658172001759 putative active site [active] 658172001760 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 658172001761 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 658172001762 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 658172001763 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 658172001764 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 658172001765 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 658172001766 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 658172001767 dimer interface [polypeptide binding]; other site 658172001768 putative radical transfer pathway; other site 658172001769 diiron center [ion binding]; other site 658172001770 tyrosyl radical; other site 658172001771 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 658172001772 Reovirus sigma C capsid protein; Region: Reo_sigmaC; pfam04582 658172001773 structural protein; Region: PHA01972 658172001774 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 658172001775 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 658172001776 ATP cone domain; Region: ATP-cone; pfam03477 658172001777 Class I ribonucleotide reductase; Region: RNR_I; cd01679 658172001778 active site 658172001779 dimer interface [polypeptide binding]; other site 658172001780 catalytic residues [active] 658172001781 effector binding site; other site 658172001782 R2 peptide binding site; other site 658172001783 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 658172001784 putative phosphate acyltransferase; Provisional; Region: PRK05331 658172001785 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 658172001786 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 658172001787 dimer interface [polypeptide binding]; other site 658172001788 active site 658172001789 CoA binding pocket [chemical binding]; other site 658172001790 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 658172001791 IHF dimer interface [polypeptide binding]; other site 658172001792 IHF - DNA interface [nucleotide binding]; other site 658172001793 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 658172001794 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 658172001795 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 658172001796 Cation efflux family; Region: Cation_efflux; cl00316 658172001797 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 658172001798 catalytic residue [active] 658172001799 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 658172001800 ATP binding site [chemical binding]; other site 658172001801 active site 658172001802 substrate binding site [chemical binding]; other site 658172001803 Domain of unknown function DUF59; Region: DUF59; pfam01883 658172001804 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 658172001805 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 658172001806 Walker A motif; other site 658172001807 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 658172001808 hypothetical protein; Provisional; Region: PRK14013 658172001809 pyrophosphate--fructose-6-phosphate 1-phosphotransferase; Validated; Region: PRK06555 658172001810 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 658172001811 active site 658172001812 ADP/pyrophosphate binding site [chemical binding]; other site 658172001813 allosteric effector site; other site 658172001814 fructose-1,6-bisphosphate binding site; other site 658172001815 GTP-binding protein YchF; Reviewed; Region: PRK09601 658172001816 YchF GTPase; Region: YchF; cd01900 658172001817 G1 box; other site 658172001818 GTP/Mg2+ binding site [chemical binding]; other site 658172001819 Switch I region; other site 658172001820 G2 box; other site 658172001821 Switch II region; other site 658172001822 G3 box; other site 658172001823 G4 box; other site 658172001824 G5 box; other site 658172001825 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 658172001826 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 658172001827 putative active site [active] 658172001828 catalytic residue [active] 658172001829 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 658172001830 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 658172001831 Domain of unknown function DUF20; Region: UPF0118; pfam01594 658172001832 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 658172001833 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 658172001834 ATP binding site [chemical binding]; other site 658172001835 Mg2+ binding site [ion binding]; other site 658172001836 G-X-G motif; other site 658172001837 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 658172001838 anchoring element; other site 658172001839 dimer interface [polypeptide binding]; other site 658172001840 ATP binding site [chemical binding]; other site 658172001841 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 658172001842 active site 658172001843 metal binding site [ion binding]; metal-binding site 658172001844 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 658172001845 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 658172001846 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 658172001847 TMP-binding site; other site 658172001848 ATP-binding site [chemical binding]; other site 658172001849 DNA polymerase III subunit delta'; Validated; Region: PRK09112 658172001850 DNA polymerase III subunit delta'; Validated; Region: PRK08485 658172001851 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 658172001852 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 658172001853 active site 658172001854 HIGH motif; other site 658172001855 KMSKS motif; other site 658172001856 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 658172001857 tRNA binding surface [nucleotide binding]; other site 658172001858 anticodon binding site; other site 658172001859 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 658172001860 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 658172001861 active site 658172001862 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 658172001863 putative hydrolase; Provisional; Region: PRK02113 658172001864 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 658172001865 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 658172001866 metal ion-dependent adhesion site (MIDAS); other site 658172001867 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 658172001868 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 658172001869 Uncharacterized conserved protein [Function unknown]; Region: COG1432 658172001870 LabA_like proteins; Region: LabA; cd10911 658172001871 putative metal binding site [ion binding]; other site 658172001872 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 658172001873 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 658172001874 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 658172001875 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 658172001876 Catalytic site [active] 658172001877 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 658172001878 ribonuclease III; Reviewed; Region: PRK12371 658172001879 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 658172001880 dimerization interface [polypeptide binding]; other site 658172001881 active site 658172001882 metal binding site [ion binding]; metal-binding site 658172001883 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 658172001884 dsRNA binding site [nucleotide binding]; other site 658172001885 GTPase Era; Reviewed; Region: era; PRK00089 658172001886 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 658172001887 G1 box; other site 658172001888 GTP/Mg2+ binding site [chemical binding]; other site 658172001889 Switch I region; other site 658172001890 G2 box; other site 658172001891 Switch II region; other site 658172001892 G3 box; other site 658172001893 G4 box; other site 658172001894 G5 box; other site 658172001895 KH domain; Region: KH_2; pfam07650 658172001896 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 658172001897 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 658172001898 Substrate binding site; other site 658172001899 Mg++ binding site; other site 658172001900 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 658172001901 active site 658172001902 substrate binding site [chemical binding]; other site 658172001903 CoA binding site [chemical binding]; other site 658172001904 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 658172001905 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 658172001906 glutaminase active site [active] 658172001907 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 658172001908 dimer interface [polypeptide binding]; other site 658172001909 active site 658172001910 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 658172001911 dimer interface [polypeptide binding]; other site 658172001912 active site 658172001913 Uncharacterized conserved protein [Function unknown]; Region: COG2928 658172001914 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 658172001915 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 658172001916 generic binding surface II; other site 658172001917 ssDNA binding site; other site 658172001918 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 658172001919 ATP binding site [chemical binding]; other site 658172001920 putative Mg++ binding site [ion binding]; other site 658172001921 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 658172001922 nucleotide binding region [chemical binding]; other site 658172001923 ATP-binding site [chemical binding]; other site 658172001924 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 658172001925 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 658172001926 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 658172001927 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 658172001928 ATP binding site [chemical binding]; other site 658172001929 putative Mg++ binding site [ion binding]; other site 658172001930 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 658172001931 nucleotide binding region [chemical binding]; other site 658172001932 ATP-binding site [chemical binding]; other site 658172001933 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 658172001934 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 658172001935 Recombination protein O N terminal; Region: RecO_N; pfam11967 658172001936 Recombination protein O C terminal; Region: RecO_C; pfam02565 658172001937 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 658172001938 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 658172001939 active site 658172001940 HIGH motif; other site 658172001941 dimer interface [polypeptide binding]; other site 658172001942 KMSKS motif; other site 658172001943 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 658172001944 RNA binding surface [nucleotide binding]; other site 658172001945 YecR-like lipoprotein; Region: YecR; cl10256 658172001946 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 658172001947 Ligand Binding Site [chemical binding]; other site 658172001948 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 658172001949 active site 658172001950 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 658172001951 HemY protein N-terminus; Region: HemY_N; pfam07219 658172001952 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 658172001953 binding surface 658172001954 TPR motif; other site 658172001955 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 658172001956 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 658172001957 active site 658172001958 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 658172001959 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 658172001960 domain interfaces; other site 658172001961 active site 658172001962 UGMP family protein; Validated; Region: PRK09604 658172001963 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 658172001964 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 658172001965 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 658172001966 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 658172001967 EVE domain; Region: EVE; cl00728 658172001968 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 658172001969 Iron-sulfur protein interface; other site 658172001970 proximal quinone binding site [chemical binding]; other site 658172001971 SdhD (CybS) interface [polypeptide binding]; other site 658172001972 proximal heme binding site [chemical binding]; other site 658172001973 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 658172001974 putative SdhC subunit interface [polypeptide binding]; other site 658172001975 putative proximal heme binding site [chemical binding]; other site 658172001976 putative Iron-sulfur protein interface [polypeptide binding]; other site 658172001977 putative proximal quinone binding site; other site 658172001978 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 658172001979 L-aspartate oxidase; Provisional; Region: PRK06175 658172001980 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 658172001981 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 658172001982 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 658172001983 Protease inhibitor Inh; Region: Inh; pfam02974 658172001984 Predicted ATPase [General function prediction only]; Region: COG1485 658172001985 malate dehydrogenase; Reviewed; Region: PRK06223 658172001986 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 658172001987 NAD(P) binding site [chemical binding]; other site 658172001988 dimer interface [polypeptide binding]; other site 658172001989 tetramer (dimer of dimers) interface [polypeptide binding]; other site 658172001990 substrate binding site [chemical binding]; other site 658172001991 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 658172001992 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 658172001993 CoA-ligase; Region: Ligase_CoA; pfam00549 658172001994 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 658172001995 CoA binding domain; Region: CoA_binding; smart00881 658172001996 Predicted kinase [General function prediction only]; Region: COG4857; cl17281 658172001997 CoA-ligase; Region: Ligase_CoA; pfam00549 658172001998 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 658172001999 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 658172002000 TPP-binding site [chemical binding]; other site 658172002001 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 658172002002 dimer interface [polypeptide binding]; other site 658172002003 PYR/PP interface [polypeptide binding]; other site 658172002004 TPP binding site [chemical binding]; other site 658172002005 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 658172002006 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 658172002007 E3 interaction surface; other site 658172002008 lipoyl attachment site [posttranslational modification]; other site 658172002009 e3 binding domain; Region: E3_binding; pfam02817 658172002010 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 658172002011 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 658172002012 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 658172002013 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 658172002014 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 658172002015 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 658172002016 tetramer (dimer of dimers) interface [polypeptide binding]; other site 658172002017 active site 658172002018 dimer interface [polypeptide binding]; other site 658172002019 glutathione reductase; Validated; Region: PRK06116 658172002020 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 658172002021 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 658172002022 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 658172002023 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 658172002024 putative ABC transporter; Region: ycf24; CHL00085 658172002025 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 658172002026 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 658172002027 Walker A/P-loop; other site 658172002028 ATP binding site [chemical binding]; other site 658172002029 Q-loop/lid; other site 658172002030 ABC transporter signature motif; other site 658172002031 Walker B; other site 658172002032 D-loop; other site 658172002033 H-loop/switch region; other site 658172002034 FeS assembly protein SufD; Region: sufD; TIGR01981 658172002035 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 658172002036 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 658172002037 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 658172002038 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 658172002039 catalytic residue [active] 658172002040 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 658172002041 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 658172002042 Fe-S metabolism associated domain; Region: SufE; cl00951 658172002043 NAD synthetase; Provisional; Region: PRK13981 658172002044 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 658172002045 multimer interface [polypeptide binding]; other site 658172002046 active site 658172002047 catalytic triad [active] 658172002048 protein interface 1 [polypeptide binding]; other site 658172002049 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 658172002050 homodimer interface [polypeptide binding]; other site 658172002051 NAD binding pocket [chemical binding]; other site 658172002052 ATP binding pocket [chemical binding]; other site 658172002053 Mg binding site [ion binding]; other site 658172002054 active-site loop [active] 658172002055 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 658172002056 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 658172002057 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 658172002058 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 658172002059 active site 658172002060 dimer interface [polypeptide binding]; other site 658172002061 motif 1; other site 658172002062 motif 2; other site 658172002063 motif 3; other site 658172002064 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 658172002065 anticodon binding site; other site 658172002066 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 658172002067 DNA-binding site [nucleotide binding]; DNA binding site 658172002068 RNA-binding motif; other site 658172002069 cell division protein MraZ; Reviewed; Region: PRK00326 658172002070 MraZ protein; Region: MraZ; pfam02381 658172002071 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 658172002072 MraW methylase family; Region: Methyltransf_5; cl17771 658172002073 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 658172002074 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 658172002075 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 658172002076 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 658172002077 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 658172002078 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 658172002079 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 658172002080 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 658172002081 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 658172002082 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 658172002083 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 658172002084 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 658172002085 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 658172002086 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 658172002087 Mg++ binding site [ion binding]; other site 658172002088 putative catalytic motif [active] 658172002089 putative substrate binding site [chemical binding]; other site 658172002090 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 658172002091 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 658172002092 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 658172002093 cell division protein FtsW; Region: ftsW; TIGR02614 658172002094 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 658172002095 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 658172002096 active site 658172002097 homodimer interface [polypeptide binding]; other site 658172002098 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 658172002099 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 658172002100 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 658172002101 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 658172002102 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 658172002103 FAD binding domain; Region: FAD_binding_4; pfam01565 658172002104 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 658172002105 hypothetical protein; Region: PHA00661 658172002106 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 658172002107 DALR anticodon binding domain; Region: DALR_1; pfam05746 658172002108 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 658172002109 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 658172002110 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 658172002111 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 658172002112 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 658172002113 catalytic residue [active] 658172002114 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 658172002115 ATP synthase subunit 6 (eukaryotes),also subunit A (prokaryotes); Region: ATP_synt_6_or_A; TIGR01131 658172002116 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 658172002117 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 658172002118 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 658172002119 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 658172002120 hypothetical protein; Provisional; Region: PRK13694 658172002121 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 658172002122 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 658172002123 metal binding site [ion binding]; metal-binding site 658172002124 active site 658172002125 I-site; other site 658172002126 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 658172002127 RNA/DNA hybrid binding site [nucleotide binding]; other site 658172002128 active site 658172002129 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 658172002130 ligand binding site [chemical binding]; other site 658172002131 active site 658172002132 UGI interface [polypeptide binding]; other site 658172002133 catalytic site [active] 658172002134 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 658172002135 Coproporphyrinogen III oxidase [Coenzyme metabolism]; Region: HemF; COG0408 658172002136 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 658172002137 phosphoglucomutase; Region: PLN02307 658172002138 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 658172002139 active site 658172002140 substrate binding site [chemical binding]; other site 658172002141 metal binding site [ion binding]; metal-binding site 658172002142 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 658172002143 metal ion-dependent adhesion site (MIDAS); other site 658172002144 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 658172002145 metal ion-dependent adhesion site (MIDAS); other site 658172002146 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 658172002147 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 658172002148 substrate binding pocket [chemical binding]; other site 658172002149 chain length determination region; other site 658172002150 substrate-Mg2+ binding site; other site 658172002151 catalytic residues [active] 658172002152 aspartate-rich region 1; other site 658172002153 active site lid residues [active] 658172002154 aspartate-rich region 2; other site 658172002155 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 658172002156 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 658172002157 substrate binding pocket [chemical binding]; other site 658172002158 membrane-bound complex binding site; other site 658172002159 hinge residues; other site 658172002160 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 658172002161 dimer interface [polypeptide binding]; other site 658172002162 conserved gate region; other site 658172002163 putative PBP binding loops; other site 658172002164 ABC-ATPase subunit interface; other site 658172002165 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 658172002166 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 658172002167 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 658172002168 excinuclease ABC subunit B; Provisional; Region: PRK05298 658172002169 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 658172002170 ATP binding site [chemical binding]; other site 658172002171 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 658172002172 nucleotide binding region [chemical binding]; other site 658172002173 ATP-binding site [chemical binding]; other site 658172002174 Ultra-violet resistance protein B; Region: UvrB; pfam12344 658172002175 UvrB/uvrC motif; Region: UVR; pfam02151 658172002176 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 658172002177 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 658172002178 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 658172002179 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 658172002180 Helix-turn-helix domain; Region: HTH_19; pfam12844 658172002181 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 658172002182 non-specific DNA binding site [nucleotide binding]; other site 658172002183 salt bridge; other site 658172002184 sequence-specific DNA binding site [nucleotide binding]; other site 658172002185 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 658172002186 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 658172002187 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 658172002188 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 658172002189 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 658172002190 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 658172002191 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 658172002192 motif II; other site 658172002193 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 658172002194 catalytic residues [active] 658172002195 HflC protein; Region: hflC; TIGR01932 658172002196 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 658172002197 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 658172002198 HflK protein; Region: hflK; TIGR01933 658172002199 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 658172002200 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 658172002201 folate binding site [chemical binding]; other site 658172002202 NADP+ binding site [chemical binding]; other site 658172002203 thymidylate synthase; Reviewed; Region: thyA; PRK01827 658172002204 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 658172002205 dimerization interface [polypeptide binding]; other site 658172002206 active site 658172002207 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 658172002208 AsmA family; Region: AsmA; pfam05170 658172002209 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 658172002210 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 658172002211 ligand binding site [chemical binding]; other site 658172002212 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 658172002213 Part of AAA domain; Region: AAA_19; pfam13245 658172002214 Family description; Region: UvrD_C_2; pfam13538 658172002215 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 658172002216 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 658172002217 homodimer interface [polypeptide binding]; other site 658172002218 substrate binding pocket [chemical binding]; other site 658172002219 catalytic residues [active] 658172002220 NADH/NADPH cofactor binding site [chemical binding]; other site 658172002221 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 658172002222 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 658172002223 homotetramer interface [polypeptide binding]; other site 658172002224 FMN binding site [chemical binding]; other site 658172002225 homodimer contacts [polypeptide binding]; other site 658172002226 putative active site [active] 658172002227 putative substrate binding site [chemical binding]; other site 658172002228 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 658172002229 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 658172002230 dimer interface [polypeptide binding]; other site 658172002231 active site 658172002232 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 658172002233 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 658172002234 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 658172002235 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 658172002236 diphosphomevalonate decarboxylase; Region: PLN02407 658172002237 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 658172002238 active site 658172002239 substrate binding pocket [chemical binding]; other site 658172002240 dimer interface [polypeptide binding]; other site 658172002241 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 658172002242 active site 658172002243 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 658172002244 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 658172002245 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 658172002246 GatB domain; Region: GatB_Yqey; smart00845 658172002247 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 658172002248 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 658172002249 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 658172002250 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 658172002251 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 658172002252 Terminase-like family; Region: Terminase_6; pfam03237 658172002253 Bacteriophage terminase large (ATPase) subunit and inactivated derivatives [General function prediction only]; Region: COG5565 658172002254 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 658172002255 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 658172002256 non-specific DNA binding site [nucleotide binding]; other site 658172002257 salt bridge; other site 658172002258 sequence-specific DNA binding site [nucleotide binding]; other site 658172002259 replicative DNA helicase; Region: DnaB; TIGR00665 658172002260 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 658172002261 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 658172002262 Walker A motif; other site 658172002263 ATP binding site [chemical binding]; other site 658172002264 Walker B motif; other site 658172002265 DNA binding loops [nucleotide binding] 658172002266 Protein of unknown function (DUF1376); Region: DUF1376; cl01531 658172002267 SurA N-terminal domain; Region: SurA_N_3; cl07813 658172002268 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 658172002269 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 658172002270 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 658172002271 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 658172002272 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 658172002273 Coenzyme A binding pocket [chemical binding]; other site 658172002274 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 658172002275 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 658172002276 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 658172002277 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 658172002278 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 658172002279 NAD binding site [chemical binding]; other site 658172002280 homotetramer interface [polypeptide binding]; other site 658172002281 homodimer interface [polypeptide binding]; other site 658172002282 substrate binding site [chemical binding]; other site 658172002283 active site 658172002284 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 658172002285 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 658172002286 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 658172002287 FMN binding site [chemical binding]; other site 658172002288 active site 658172002289 catalytic residues [active] 658172002290 substrate binding site [chemical binding]; other site 658172002291 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 658172002292 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 658172002293 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 658172002294 DNA photolyase; Region: DNA_photolyase; pfam00875 658172002295 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 658172002296 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 658172002297 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 658172002298 catalytic residues [active] 658172002299 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 658172002300 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 658172002301 nucleotide binding pocket [chemical binding]; other site 658172002302 K-X-D-G motif; other site 658172002303 catalytic site [active] 658172002304 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 658172002305 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 658172002306 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 658172002307 Dimer interface [polypeptide binding]; other site 658172002308 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 658172002309 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 658172002310 Walker A/P-loop; other site 658172002311 ATP binding site [chemical binding]; other site 658172002312 Q-loop/lid; other site 658172002313 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 658172002314 ABC transporter signature motif; other site 658172002315 Walker B; other site 658172002316 D-loop; other site 658172002317 H-loop/switch region; other site 658172002318 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 658172002319 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 658172002320 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 658172002321 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 658172002322 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 658172002323 nucleotide binding site [chemical binding]; other site 658172002324 SulA interaction site; other site 658172002325 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 658172002326 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 658172002327 Cell division protein FtsA; Region: FtsA; smart00842 658172002328 Cell division protein FtsA; Region: FtsA; pfam14450 658172002329 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 658172002330 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 658172002331 Cell division protein FtsQ; Region: FtsQ; pfam03799 658172002332 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 658172002333 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 658172002334 ATP-grasp domain; Region: ATP-grasp_4; cl17255 658172002335 Protein of unknown function (DUF4231); Region: DUF4231; pfam14015 658172002336 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 658172002337 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 658172002338 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 658172002339 non-specific DNA binding site [nucleotide binding]; other site 658172002340 salt bridge; other site 658172002341 sequence-specific DNA binding site [nucleotide binding]; other site 658172002342 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 658172002343 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 658172002344 non-specific DNA binding site [nucleotide binding]; other site 658172002345 salt bridge; other site 658172002346 sequence-specific DNA binding site [nucleotide binding]; other site 658172002347 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 658172002348 DNA binding site [nucleotide binding] 658172002349 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 658172002350 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 658172002351 active site 658172002352 NTP binding site [chemical binding]; other site 658172002353 metal binding triad [ion binding]; metal-binding site 658172002354 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 658172002355 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 658172002356 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 658172002357 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 658172002358 HIGH motif; other site 658172002359 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 658172002360 active site 658172002361 KMSKS motif; other site 658172002362 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 658172002363 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 658172002364 dimer interface [polypeptide binding]; other site 658172002365 putative anticodon binding site; other site 658172002366 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 658172002367 motif 1; other site 658172002368 active site 658172002369 motif 2; other site 658172002370 motif 3; other site 658172002371 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 658172002372 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 658172002373 FeS/SAM binding site; other site 658172002374 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 658172002375 Thiamine pyrophosphokinase; Region: TPK; cd07995 658172002376 active site 658172002377 dimerization interface [polypeptide binding]; other site 658172002378 thiamine binding site [chemical binding]; other site 658172002379 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 658172002380 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 658172002381 ABC transporter; Region: ABC_tran_2; pfam12848 658172002382 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 658172002383 elongation factor P; Validated; Region: PRK00529 658172002384 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 658172002385 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 658172002386 RNA binding site [nucleotide binding]; other site 658172002387 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 658172002388 RNA binding site [nucleotide binding]; other site 658172002389 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 658172002390 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 658172002391 motif 1; other site 658172002392 dimer interface [polypeptide binding]; other site 658172002393 active site 658172002394 motif 2; other site 658172002395 motif 3; other site 658172002396 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 658172002397 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 658172002398 FeS/SAM binding site; other site 658172002399 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 658172002400 catalytic center binding site [active] 658172002401 ATP binding site [chemical binding]; other site 658172002402 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 658172002403 active site 658172002404 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 658172002405 dihydropteroate synthase; Region: DHPS; TIGR01496 658172002406 substrate binding pocket [chemical binding]; other site 658172002407 dimer interface [polypeptide binding]; other site 658172002408 inhibitor binding site; inhibition site 658172002409 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07133 658172002410 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 658172002411 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 658172002412 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 658172002413 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 658172002414 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 658172002415 trimer interface [polypeptide binding]; other site 658172002416 active site 658172002417 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 658172002418 hydroxyglutarate oxidase; Provisional; Region: PRK11728 658172002419 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 658172002420 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 658172002421 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 658172002422 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 658172002423 substrate binding site [chemical binding]; other site 658172002424 hexamer interface [polypeptide binding]; other site 658172002425 metal binding site [ion binding]; metal-binding site 658172002426 adenylosuccinate lyase; Provisional; Region: PRK07492 658172002427 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 658172002428 tetramer interface [polypeptide binding]; other site 658172002429 active site 658172002430 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 658172002431 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 658172002432 ATP binding site [chemical binding]; other site 658172002433 active site 658172002434 substrate binding site [chemical binding]; other site 658172002435 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 658172002436 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 658172002437 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 658172002438 putative active site [active] 658172002439 catalytic triad [active] 658172002440 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 658172002441 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 658172002442 dimerization interface [polypeptide binding]; other site 658172002443 ATP binding site [chemical binding]; other site 658172002444 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 658172002445 dimerization interface [polypeptide binding]; other site 658172002446 ATP binding site [chemical binding]; other site 658172002447 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 658172002448 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 658172002449 putative GSH binding site [chemical binding]; other site 658172002450 catalytic residues [active] 658172002451 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 658172002452 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 658172002453 putative substrate translocation pore; other site 658172002454 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 658172002455 glutaminase; Provisional; Region: PRK00971 658172002456 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 658172002457 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 658172002458 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 658172002459 RNA binding surface [nucleotide binding]; other site 658172002460 glutamate racemase; Provisional; Region: PRK00865 658172002461 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 658172002462 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 658172002463 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 658172002464 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 658172002465 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 658172002466 dimer interface [polypeptide binding]; other site 658172002467 phosphorylation site [posttranslational modification] 658172002468 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 658172002469 ATP binding site [chemical binding]; other site 658172002470 Mg2+ binding site [ion binding]; other site 658172002471 G-X-G motif; other site 658172002472 isocitrate dehydrogenase; Validated; Region: PRK08299 658172002473 CTP synthetase; Validated; Region: pyrG; PRK05380 658172002474 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 658172002475 Catalytic site [active] 658172002476 active site 658172002477 UTP binding site [chemical binding]; other site 658172002478 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 658172002479 active site 658172002480 putative oxyanion hole; other site 658172002481 catalytic triad [active] 658172002482 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 658172002483 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 658172002484 triosephosphate isomerase; Provisional; Region: PRK14565 658172002485 substrate binding site [chemical binding]; other site 658172002486 dimer interface [polypeptide binding]; other site 658172002487 catalytic triad [active] 658172002488 ferrochelatase; Reviewed; Region: hemH; PRK00035 658172002489 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 658172002490 C-terminal domain interface [polypeptide binding]; other site 658172002491 active site 658172002492 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 658172002493 active site 658172002494 N-terminal domain interface [polypeptide binding]; other site 658172002495 Lipopolysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: RgpF; COG3754 658172002496 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 658172002497 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 658172002498 FeS/SAM binding site; other site 658172002499 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 658172002500 UbiA prenyltransferase family; Region: UbiA; pfam01040 658172002501 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 658172002502 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 658172002503 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 658172002504 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 658172002505 hypothetical protein; Region: PHA00662 658172002506 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 658172002507 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 658172002508 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 658172002509 active site 658172002510 Int/Topo IB signature motif; other site 658172002511 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 658172002512 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 658172002513 catalytic triad [active] 658172002514 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 658172002515 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 658172002516 active site 658172002517 HIGH motif; other site 658172002518 nucleotide binding site [chemical binding]; other site 658172002519 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 658172002520 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 658172002521 active site 658172002522 KMSKS motif; other site 658172002523 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 658172002524 tRNA binding surface [nucleotide binding]; other site 658172002525 anticodon binding site; other site 658172002526 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 658172002527 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 658172002528 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 658172002529 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 658172002530 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 658172002531 dimer interface [polypeptide binding]; other site 658172002532 motif 1; other site 658172002533 active site 658172002534 motif 2; other site 658172002535 motif 3; other site 658172002536 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 658172002537 anticodon binding site; other site 658172002538 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 658172002539 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 658172002540 hinge; other site 658172002541 active site 658172002542 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 658172002543 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 658172002544 Protein export membrane protein; Region: SecD_SecF; pfam02355 658172002545 putative cation:proton antiport protein; Provisional; Region: PRK10669 658172002546 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 658172002547 TrkA-N domain; Region: TrkA_N; pfam02254 658172002548 Lipopolysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: RgpF; COG3754 658172002549 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 658172002550 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 658172002551 substrate binding site; other site 658172002552 tetramer interface; other site 658172002553 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 658172002554 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 658172002555 NADP binding site [chemical binding]; other site 658172002556 active site 658172002557 putative substrate binding site [chemical binding]; other site 658172002558 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 658172002559 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 658172002560 NAD binding site [chemical binding]; other site 658172002561 substrate binding site [chemical binding]; other site 658172002562 homodimer interface [polypeptide binding]; other site 658172002563 active site 658172002564 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 658172002565 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 658172002566 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 658172002567 Probable Catalytic site; other site 658172002568 metal-binding site 658172002569 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 658172002570 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 658172002571 Probable Catalytic site; other site 658172002572 metal-binding site 658172002573 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 658172002574 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 658172002575 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 658172002576 Walker A/P-loop; other site 658172002577 ATP binding site [chemical binding]; other site 658172002578 Q-loop/lid; other site 658172002579 ABC transporter signature motif; other site 658172002580 Walker B; other site 658172002581 D-loop; other site 658172002582 H-loop/switch region; other site 658172002583 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 658172002584 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 658172002585 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 658172002586 active site 658172002587 substrate binding site [chemical binding]; other site 658172002588 cosubstrate binding site; other site 658172002589 catalytic site [active] 658172002590 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 658172002591 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 658172002592 catalytic site [active] 658172002593 G-X2-G-X-G-K; other site 658172002594 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 658172002595 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 658172002596 active site 658172002597 phosphorylation site [posttranslational modification] 658172002598 intermolecular recognition site; other site 658172002599 dimerization interface [polypeptide binding]; other site 658172002600 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 658172002601 Walker A motif; other site 658172002602 ATP binding site [chemical binding]; other site 658172002603 Walker B motif; other site 658172002604 arginine finger; other site 658172002605 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 658172002606 Squalene/phytoene synthase; Region: SQS_PSY; pfam00494 658172002607 substrate binding pocket [chemical binding]; other site 658172002608 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 658172002609 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 658172002610 Walker A motif; other site 658172002611 ATP binding site [chemical binding]; other site 658172002612 Walker B motif; other site 658172002613 arginine finger; other site 658172002614 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; cl17189 658172002615 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 658172002616 Walker A motif; other site 658172002617 ATP binding site [chemical binding]; other site 658172002618 Walker B motif; other site 658172002619 arginine finger; other site 658172002620 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 658172002621 Uncharacterized conserved protein [Function unknown]; Region: COG2127 658172002622 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 658172002623 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 658172002624 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 658172002625 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 658172002626 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 658172002627 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 658172002628 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 658172002629 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 658172002630 substrate binding pocket [chemical binding]; other site 658172002631 membrane-bound complex binding site; other site 658172002632 hinge residues; other site 658172002633 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 658172002634 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 658172002635 conserved gate region; other site 658172002636 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 658172002637 dimer interface [polypeptide binding]; other site 658172002638 ABC-ATPase subunit interface; other site 658172002639 putative PBP binding loops; other site 658172002640 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 658172002641 dimer interface [polypeptide binding]; other site 658172002642 conserved gate region; other site 658172002643 putative PBP binding loops; other site 658172002644 ABC-ATPase subunit interface; other site 658172002645 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 658172002646 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 658172002647 Walker A/P-loop; other site 658172002648 ATP binding site [chemical binding]; other site 658172002649 Q-loop/lid; other site 658172002650 ABC transporter signature motif; other site 658172002651 Walker B; other site 658172002652 D-loop; other site 658172002653 H-loop/switch region; other site 658172002654 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 658172002655 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 658172002656 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 658172002657 DHH family; Region: DHH; pfam01368 658172002658 DHHA1 domain; Region: DHHA1; pfam02272 658172002659 homoserine dehydrogenase; Provisional; Region: PRK06349 658172002660 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 658172002661 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 658172002662 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 658172002663 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 658172002664 active site 658172002665 hypothetical protein; Reviewed; Region: PRK00024 658172002666 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 658172002667 MPN+ (JAMM) motif; other site 658172002668 Zinc-binding site [ion binding]; other site 658172002669 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 658172002670 trigger factor; Provisional; Region: tig; PRK01490 658172002671 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 658172002672 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 658172002673 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 658172002674 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 658172002675 TM-ABC transporter signature motif; other site 658172002676 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 658172002677 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 658172002678 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 658172002679 active site 658172002680 phosphorylation site [posttranslational modification] 658172002681 intermolecular recognition site; other site 658172002682 dimerization interface [polypeptide binding]; other site 658172002683 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 658172002684 DNA binding site [nucleotide binding] 658172002685 Response regulator receiver domain; Region: Response_reg; pfam00072 658172002686 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 658172002687 active site 658172002688 phosphorylation site [posttranslational modification] 658172002689 intermolecular recognition site; other site 658172002690 dimerization interface [polypeptide binding]; other site 658172002691 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5385 658172002692 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 658172002693 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 658172002694 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 658172002695 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 658172002696 active site 658172002697 PilZ domain; Region: PilZ; pfam07238 658172002698 PilZ domain; Region: PilZ; pfam07238 658172002699 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 658172002700 GTP cyclohydrolase I; Provisional; Region: PLN03044 658172002701 active site 658172002702 hypothetical protein; Validated; Region: PRK00041 658172002703 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 658172002704 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 658172002705 active site 658172002706 DNA binding site [nucleotide binding] 658172002707 Int/Topo IB signature motif; other site 658172002708 Domain of unknown function DUF59; Region: DUF59; pfam01883 658172002709 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 658172002710 Peptidase family M23; Region: Peptidase_M23; pfam01551 658172002711 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 658172002712 Clp amino terminal domain; Region: Clp_N; pfam02861 658172002713 Clp amino terminal domain; Region: Clp_N; pfam02861 658172002714 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 658172002715 Walker A motif; other site 658172002716 ATP binding site [chemical binding]; other site 658172002717 Walker B motif; other site 658172002718 arginine finger; other site 658172002719 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 658172002720 Walker A motif; other site 658172002721 ATP binding site [chemical binding]; other site 658172002722 Walker B motif; other site 658172002723 arginine finger; other site 658172002724 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 658172002725 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 658172002726 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 658172002727 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 658172002728 S-adenosylmethionine binding site [chemical binding]; other site 658172002729 peptide chain release factor 1; Validated; Region: prfA; PRK00591 658172002730 This domain is found in peptide chain release factors; Region: PCRF; smart00937 658172002731 RF-1 domain; Region: RF-1; pfam00472 658172002732 aspartate kinase; Reviewed; Region: PRK06635 658172002733 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 658172002734 putative catalytic residues [active] 658172002735 putative nucleotide binding site [chemical binding]; other site 658172002736 putative aspartate binding site [chemical binding]; other site 658172002737 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 658172002738 putative allosteric regulatory site; other site 658172002739 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 658172002740 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 658172002741 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 658172002742 S-adenosylmethionine binding site [chemical binding]; other site 658172002743 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 658172002744 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 658172002745 Walker A/P-loop; other site 658172002746 ATP binding site [chemical binding]; other site 658172002747 Q-loop/lid; other site 658172002748 ABC transporter signature motif; other site 658172002749 Walker B; other site 658172002750 D-loop; other site 658172002751 H-loop/switch region; other site 658172002752 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 658172002753 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 658172002754 FtsX-like permease family; Region: FtsX; pfam02687 658172002755 prolyl-tRNA synthetase; Provisional; Region: PRK12325 658172002756 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 658172002757 dimer interface [polypeptide binding]; other site 658172002758 motif 1; other site 658172002759 active site 658172002760 motif 2; other site 658172002761 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 658172002762 active site 658172002763 motif 3; other site 658172002764 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 658172002765 anticodon binding site; other site 658172002766 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 658172002767 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 658172002768 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 658172002769 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 658172002770 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 658172002771 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 658172002772 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 658172002773 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 658172002774 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 658172002775 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 658172002776 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 658172002777 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 658172002778 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 658172002779 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 658172002780 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 658172002781 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 658172002782 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 658172002783 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 658172002784 4Fe-4S binding domain; Region: Fer4; cl02805 658172002785 4Fe-4S binding domain; Region: Fer4; pfam00037 658172002786 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 658172002787 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 658172002788 NADH dehydrogenase subunit G; Validated; Region: PRK09130 658172002789 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 658172002790 catalytic loop [active] 658172002791 iron binding site [ion binding]; other site 658172002792 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 658172002793 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 658172002794 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 658172002795 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 658172002796 SLBB domain; Region: SLBB; pfam10531 658172002797 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 658172002798 NADH dehydrogenase subunit E; Validated; Region: PRK07539 658172002799 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 658172002800 putative dimer interface [polypeptide binding]; other site 658172002801 [2Fe-2S] cluster binding site [ion binding]; other site 658172002802 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 658172002803 NADH dehydrogenase subunit D; Validated; Region: PRK06075 658172002804 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 658172002805 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 658172002806 NADH dehydrogenase subunit B; Validated; Region: PRK06411 658172002807 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 658172002808 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 658172002809 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 658172002810 ring oligomerisation interface [polypeptide binding]; other site 658172002811 ATP/Mg binding site [chemical binding]; other site 658172002812 stacking interactions; other site 658172002813 hinge regions; other site 658172002814 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 658172002815 oligomerisation interface [polypeptide binding]; other site 658172002816 mobile loop; other site 658172002817 roof hairpin; other site 658172002818 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 658172002819 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 658172002820 active site 658172002821 motif I; other site 658172002822 motif II; other site 658172002823 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 658172002824 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 658172002825 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 658172002826 active site 658172002827 Riboflavin kinase; Region: Flavokinase; smart00904 658172002828 glucose/galactose transporter; Region: gluP; TIGR01272 658172002829 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 658172002830 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 658172002831 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 658172002832 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 658172002833 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 658172002834 KpsF/GutQ family protein; Region: kpsF; TIGR00393 658172002835 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 658172002836 putative active site [active] 658172002837 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 658172002838 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 658172002839 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 658172002840 active site 658172002841 phosphorylation site [posttranslational modification] 658172002842 intermolecular recognition site; other site 658172002843 dimerization interface [polypeptide binding]; other site 658172002844 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 658172002845 Walker A motif; other site 658172002846 ATP binding site [chemical binding]; other site 658172002847 Walker B motif; other site 658172002848 arginine finger; other site 658172002849 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 658172002850 DNA-binding interface [nucleotide binding]; DNA binding site 658172002851 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 658172002852 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 658172002853 active site 658172002854 Zn binding site [ion binding]; other site 658172002855 malic enzyme; Reviewed; Region: PRK12862 658172002856 Malic enzyme, N-terminal domain; Region: malic; pfam00390 658172002857 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 658172002858 putative NAD(P) binding site [chemical binding]; other site 658172002859 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 658172002860 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 658172002861 Permease; Region: Permease; pfam02405 658172002862 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 658172002863 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 658172002864 Walker A/P-loop; other site 658172002865 ATP binding site [chemical binding]; other site 658172002866 Q-loop/lid; other site 658172002867 ABC transporter signature motif; other site 658172002868 Walker B; other site 658172002869 D-loop; other site 658172002870 H-loop/switch region; other site 658172002871 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 658172002872 mce related protein; Region: MCE; pfam02470 658172002873 Protein of unknown function (DUF330); Region: DUF330; cl01135 658172002874 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 658172002875 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 658172002876 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 658172002877 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 658172002878 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 658172002879 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 658172002880 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 658172002881 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 658172002882 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 658172002883 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 658172002884 DNA binding site [nucleotide binding] 658172002885 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 658172002886 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 658172002887 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 658172002888 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 658172002889 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 658172002890 RPB12 interaction site [polypeptide binding]; other site 658172002891 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 658172002892 RPB3 interaction site [polypeptide binding]; other site 658172002893 RPB1 interaction site [polypeptide binding]; other site 658172002894 RPB11 interaction site [polypeptide binding]; other site 658172002895 RPB10 interaction site [polypeptide binding]; other site 658172002896 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 658172002897 peripheral dimer interface [polypeptide binding]; other site 658172002898 core dimer interface [polypeptide binding]; other site 658172002899 L10 interface [polypeptide binding]; other site 658172002900 L11 interface [polypeptide binding]; other site 658172002901 putative EF-Tu interaction site [polypeptide binding]; other site 658172002902 putative EF-G interaction site [polypeptide binding]; other site 658172002903 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 658172002904 23S rRNA interface [nucleotide binding]; other site 658172002905 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 658172002906 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 658172002907 mRNA/rRNA interface [nucleotide binding]; other site 658172002908 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 658172002909 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 658172002910 23S rRNA interface [nucleotide binding]; other site 658172002911 L7/L12 interface [polypeptide binding]; other site 658172002912 putative thiostrepton binding site; other site 658172002913 L25 interface [polypeptide binding]; other site 658172002914 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 658172002915 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 658172002916 putative homodimer interface [polypeptide binding]; other site 658172002917 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 658172002918 heterodimer interface [polypeptide binding]; other site 658172002919 homodimer interface [polypeptide binding]; other site 658172002920 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 658172002921 elongation factor Tu; Reviewed; Region: PRK00049 658172002922 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 658172002923 G1 box; other site 658172002924 GEF interaction site [polypeptide binding]; other site 658172002925 GTP/Mg2+ binding site [chemical binding]; other site 658172002926 Switch I region; other site 658172002927 G2 box; other site 658172002928 G3 box; other site 658172002929 Switch II region; other site 658172002930 G4 box; other site 658172002931 G5 box; other site 658172002932 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 658172002933 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 658172002934 Antibiotic Binding Site [chemical binding]; other site 658172002935 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 658172002936 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 658172002937 Ligand Binding Site [chemical binding]; other site 658172002938 potential frameshift: common BLAST hit: gi|15966483|ref|NP_386836.1| D-3-phosphoglycerate dehydrogenase 658172002939 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; cd01494 658172002940 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 658172002941 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 658172002942 catalytic residue [active] 658172002943 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 658172002944 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 658172002945 active site 658172002946 dimerization interface [polypeptide binding]; other site 658172002947 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 658172002948 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 658172002949 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 658172002950 NAD binding site [chemical binding]; other site 658172002951 ATP-grasp domain; Region: ATP-grasp; pfam02222 658172002952 fumarate hydratase; Reviewed; Region: fumC; PRK00485 658172002953 Class II fumarases; Region: Fumarase_classII; cd01362 658172002954 active site 658172002955 tetramer interface [polypeptide binding]; other site 658172002956 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 658172002957 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 658172002958 motif 1; other site 658172002959 active site 658172002960 motif 2; other site 658172002961 motif 3; other site 658172002962 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 658172002963 recombinase A; Provisional; Region: recA; PRK09354 658172002964 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 658172002965 hexamer interface [polypeptide binding]; other site 658172002966 Walker A motif; other site 658172002967 ATP binding site [chemical binding]; other site 658172002968 Walker B motif; other site 658172002969 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 658172002970 ABC transporter; Region: ABC_tran; pfam00005 658172002971 Q-loop/lid; other site 658172002972 ABC transporter signature motif; other site 658172002973 Walker B; other site 658172002974 D-loop; other site 658172002975 H-loop/switch region; other site 658172002976 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 658172002977 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 658172002978 Walker A/P-loop; other site 658172002979 ATP binding site [chemical binding]; other site 658172002980 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 658172002981 potential protein location (hypothetical protein CKC_05105 [Candidatus Liberibacter solanacearum CLso-ZC1]) that overlaps RNA (tRNA-E) 658172002982 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 658172002983 structural protein; Region: PHA01972 658172002984 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 658172002985 lipoate-protein ligase B; Provisional; Region: PRK14341 658172002986 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 658172002987 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 658172002988 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 658172002989 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 658172002990 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 658172002991 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 658172002992 active site 658172002993 nucleotide binding site [chemical binding]; other site 658172002994 HIGH motif; other site 658172002995 KMSKS motif; other site 658172002996 DNA gyrase subunit A; Validated; Region: PRK05560 658172002997 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 658172002998 CAP-like domain; other site 658172002999 active site 658172003000 primary dimer interface [polypeptide binding]; other site 658172003001 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 658172003002 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 658172003003 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 658172003004 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 658172003005 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 658172003006 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 658172003007 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 658172003008 dimer interface [polypeptide binding]; other site 658172003009 ssDNA binding site [nucleotide binding]; other site 658172003010 tetramer (dimer of dimers) interface [polypeptide binding]; other site 658172003011 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 658172003012 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 658172003013 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 658172003014 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 658172003015 glutamine synthetase; Provisional; Region: glnA; PRK09469 658172003016 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 658172003017 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 658172003018 DNA primase; Validated; Region: dnaG; PRK05667 658172003019 CHC2 zinc finger; Region: zf-CHC2; cl17510 658172003020 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 658172003021 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 658172003022 active site 658172003023 metal binding site [ion binding]; metal-binding site 658172003024 interdomain interaction site; other site 658172003025 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 658172003026 DNA-directed DNA polymerase III (polc); Region: polc; TIGR00594 658172003027 putative active site [active] 658172003028 putative PHP Thumb interface [polypeptide binding]; other site 658172003029 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 658172003030 generic binding surface I; other site 658172003031 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 658172003032 AAA domain; Region: AAA_11; pfam13086 658172003033 Part of AAA domain; Region: AAA_19; pfam13245 658172003034 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 658172003035 AAA domain; Region: AAA_30; pfam13604 658172003036 AAA domain; Region: AAA_12; pfam13087 658172003037 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 658172003038 putative active site [active] 658172003039 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 658172003040 dimer interface [polypeptide binding]; other site 658172003041 substrate binding site [chemical binding]; other site 658172003042 metal binding sites [ion binding]; metal-binding site 658172003043 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 658172003044 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 658172003045 G1 box; other site 658172003046 putative GEF interaction site [polypeptide binding]; other site 658172003047 GTP/Mg2+ binding site [chemical binding]; other site 658172003048 Switch I region; other site 658172003049 G2 box; other site 658172003050 G3 box; other site 658172003051 Switch II region; other site 658172003052 G4 box; other site 658172003053 G5 box; other site 658172003054 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 658172003055 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 658172003056 argininosuccinate synthase; Provisional; Region: PRK13820 658172003057 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 658172003058 ANP binding site [chemical binding]; other site 658172003059 Substrate Binding Site II [chemical binding]; other site 658172003060 Substrate Binding Site I [chemical binding]; other site 658172003061 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 658172003062 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 658172003063 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 658172003064 alphaNTD - beta interaction site [polypeptide binding]; other site 658172003065 alphaNTD homodimer interface [polypeptide binding]; other site 658172003066 alphaNTD - beta' interaction site [polypeptide binding]; other site 658172003067 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 658172003068 30S ribosomal protein S11; Validated; Region: PRK05309 658172003069 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 658172003070 30S ribosomal protein S13; Region: bact_S13; TIGR03631 658172003071 adenylate kinase; Reviewed; Region: adk; PRK00279 658172003072 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 658172003073 AMP-binding site [chemical binding]; other site 658172003074 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 658172003075 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 658172003076 SecY translocase; Region: SecY; pfam00344 658172003077 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 658172003078 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 658172003079 23S rRNA binding site [nucleotide binding]; other site 658172003080 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 658172003081 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 658172003082 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 658172003083 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 658172003084 23S rRNA interface [nucleotide binding]; other site 658172003085 L21e interface [polypeptide binding]; other site 658172003086 5S rRNA interface [nucleotide binding]; other site 658172003087 L27 interface [polypeptide binding]; other site 658172003088 L5 interface [polypeptide binding]; other site 658172003089 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 658172003090 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 658172003091 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 658172003092 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 658172003093 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 658172003094 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 658172003095 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 658172003096 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 658172003097 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 658172003098 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 658172003099 RNA binding site [nucleotide binding]; other site 658172003100 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 658172003101 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 658172003102 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 658172003103 23S rRNA interface [nucleotide binding]; other site 658172003104 putative translocon interaction site; other site 658172003105 signal recognition particle (SRP54) interaction site; other site 658172003106 L23 interface [polypeptide binding]; other site 658172003107 trigger factor interaction site; other site 658172003108 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 658172003109 23S rRNA interface [nucleotide binding]; other site 658172003110 5S rRNA interface [nucleotide binding]; other site 658172003111 putative antibiotic binding site [chemical binding]; other site 658172003112 L25 interface [polypeptide binding]; other site 658172003113 L27 interface [polypeptide binding]; other site 658172003114 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 658172003115 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 658172003116 G-X-X-G motif; other site 658172003117 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 658172003118 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 658172003119 putative translocon binding site; other site 658172003120 protein-rRNA interface [nucleotide binding]; other site 658172003121 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 658172003122 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 658172003123 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 658172003124 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 658172003125 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 658172003126 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 658172003127 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 658172003128 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 658172003129 elongation factor Tu; Reviewed; Region: PRK00049 658172003130 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 658172003131 G1 box; other site 658172003132 GEF interaction site [polypeptide binding]; other site 658172003133 GTP/Mg2+ binding site [chemical binding]; other site 658172003134 Switch I region; other site 658172003135 G2 box; other site 658172003136 G3 box; other site 658172003137 Switch II region; other site 658172003138 G4 box; other site 658172003139 G5 box; other site 658172003140 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 658172003141 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 658172003142 Antibiotic Binding Site [chemical binding]; other site 658172003143 elongation factor G; Reviewed; Region: PRK00007 658172003144 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 658172003145 G1 box; other site 658172003146 putative GEF interaction site [polypeptide binding]; other site 658172003147 GTP/Mg2+ binding site [chemical binding]; other site 658172003148 Switch I region; other site 658172003149 G2 box; other site 658172003150 G3 box; other site 658172003151 Switch II region; other site 658172003152 G4 box; other site 658172003153 G5 box; other site 658172003154 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 658172003155 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 658172003156 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 658172003157 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 658172003158 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 658172003159 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 658172003160 S17 interaction site [polypeptide binding]; other site 658172003161 S8 interaction site; other site 658172003162 16S rRNA interaction site [nucleotide binding]; other site 658172003163 streptomycin interaction site [chemical binding]; other site 658172003164 23S rRNA interaction site [nucleotide binding]; other site 658172003165 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 658172003166 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 658172003167 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 658172003168 carboxyltransferase (CT) interaction site; other site 658172003169 biotinylation site [posttranslational modification]; other site 658172003170 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 658172003171 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 658172003172 ATP-grasp domain; Region: ATP-grasp_4; cl17255 658172003173 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 658172003174 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 658172003175 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 658172003176 Found in ATP-dependent protease La (LON); Region: LON; smart00464 658172003177 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 658172003178 Walker A motif; other site 658172003179 ATP binding site [chemical binding]; other site 658172003180 Walker B motif; other site 658172003181 arginine finger; other site 658172003182 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 658172003183 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 658172003184 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 658172003185 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 658172003186 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 658172003187 Walker A motif; other site 658172003188 ATP binding site [chemical binding]; other site 658172003189 Walker B motif; other site 658172003190 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 658172003191 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 658172003192 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 658172003193 oligomer interface [polypeptide binding]; other site 658172003194 active site residues [active] 658172003195 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 658172003196 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 658172003197 Walker A/P-loop; other site 658172003198 ATP binding site [chemical binding]; other site 658172003199 Q-loop/lid; other site 658172003200 ABC transporter signature motif; other site 658172003201 Walker B; other site 658172003202 D-loop; other site 658172003203 H-loop/switch region; other site 658172003204 ABC transporter; Region: ABC_tran_2; pfam12848 658172003205 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 658172003206 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 658172003207 potential protein location (hypothetical protein CKC_05445 [Candidatus Liberibacter solanacearum CLso-ZC1]) that overlaps RNA (tRNA-K) 658172003208 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 658172003209 SmpB-tmRNA interface; other site 658172003210 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 658172003211 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 658172003212 dimer interface [polypeptide binding]; other site 658172003213 active site 658172003214 catalytic residue [active] 658172003215 5'-3' exonuclease, N-terminal resolvase-like domain; Region: 5_3_exonuc_N; pfam02739 658172003216 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 658172003217 active site 658172003218 metal binding site 1 [ion binding]; metal-binding site 658172003219 putative 5' ssDNA interaction site; other site 658172003220 metal binding site 3; metal-binding site 658172003221 metal binding site 2 [ion binding]; metal-binding site 658172003222 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 658172003223 putative DNA binding site [nucleotide binding]; other site 658172003224 putative metal binding site [ion binding]; other site 658172003225 DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]; Region: PolA; COG0749 658172003226 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 658172003227 active site 658172003228 substrate binding site [chemical binding]; other site 658172003229 catalytic site [active] 658172003230 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 658172003231 active site 658172003232 DNA binding site [nucleotide binding] 658172003233 catalytic site [active] 658172003234 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 658172003235 catalytic core [active] 658172003236 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 658172003237 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 658172003238 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 658172003239 glucokinase, proteobacterial type; Region: glk; TIGR00749 658172003240 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 658172003241 nucleotide binding site [chemical binding]; other site 658172003242 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 658172003243 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 658172003244 Cu(I) binding site [ion binding]; other site 658172003245 Transcriptional regulator [Transcription]; Region: LysR; COG0583 658172003246 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 658172003247 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 658172003248 putative effector binding pocket; other site 658172003249 dimerization interface [polypeptide binding]; other site 658172003250 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 658172003251 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 658172003252 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 658172003253 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 658172003254 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 658172003255 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 658172003256 active site 658172003257 HIGH motif; other site 658172003258 KMSK motif region; other site 658172003259 tRNA binding surface [nucleotide binding]; other site 658172003260 DALR anticodon binding domain; Region: DALR_1; smart00836 658172003261 anticodon binding site; other site 658172003262 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 658172003263 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 658172003264 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 658172003265 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 658172003266 putative catalytic site [active] 658172003267 putative phosphate binding site [ion binding]; other site 658172003268 active site 658172003269 metal binding site A [ion binding]; metal-binding site 658172003270 DNA binding site [nucleotide binding] 658172003271 putative AP binding site [nucleotide binding]; other site 658172003272 putative metal binding site B [ion binding]; other site 658172003273 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 658172003274 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 658172003275 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 658172003276 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 658172003277 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 658172003278 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 658172003279 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 658172003280 DNA binding residues [nucleotide binding] 658172003281 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 658172003282 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 658172003283 23S rRNA interface [nucleotide binding]; other site 658172003284 L3 interface [polypeptide binding]; other site 658172003285 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 658172003286 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 658172003287 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 658172003288 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 658172003289 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 658172003290 dimerization interface 3.5A [polypeptide binding]; other site 658172003291 active site 658172003292 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 658172003293 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 658172003294 putative active site [active] 658172003295 substrate binding site [chemical binding]; other site 658172003296 putative cosubstrate binding site; other site 658172003297 catalytic site [active] 658172003298 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 658172003299 substrate binding site [chemical binding]; other site 658172003300 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 658172003301 active site 658172003302 catalytic residues [active] 658172003303 metal binding site [ion binding]; metal-binding site 658172003304 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 658172003305 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 658172003306 dimerization interface [polypeptide binding]; other site 658172003307 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 658172003308 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 658172003309 dimer interface [polypeptide binding]; other site 658172003310 active site 658172003311 acyl carrier protein; Provisional; Region: acpP; PRK00982 658172003312 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 658172003313 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 658172003314 NAD(P) binding site [chemical binding]; other site 658172003315 homotetramer interface [polypeptide binding]; other site 658172003316 homodimer interface [polypeptide binding]; other site 658172003317 active site 658172003318 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 658172003319 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 658172003320 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 658172003321 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 658172003322 intersubunit interface [polypeptide binding]; other site 658172003323 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 658172003324 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 658172003325 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 658172003326 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 658172003327 ABC-ATPase subunit interface; other site 658172003328 dimer interface [polypeptide binding]; other site 658172003329 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 658172003330 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 658172003331 ABC-ATPase subunit interface; other site 658172003332 dimer interface [polypeptide binding]; other site 658172003333 putative PBP binding regions; other site 658172003334 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; cl01970 658172003335 NADH dehydrogenase; Validated; Region: PRK08183 658172003336 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 658172003337 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 658172003338 active site 658172003339 substrate binding site [chemical binding]; other site 658172003340 metal binding site [ion binding]; metal-binding site 658172003341 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 658172003342 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 658172003343 Walker A motif; other site 658172003344 ATP binding site [chemical binding]; other site 658172003345 Walker B motif; other site 658172003346 arginine finger; other site 658172003347 Peptidase family M41; Region: Peptidase_M41; pfam01434 658172003348 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 658172003349 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 658172003350 Ligand Binding Site [chemical binding]; other site 658172003351 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 658172003352 ligand binding site [chemical binding]; other site 658172003353 translocation protein TolB; Provisional; Region: tolB; PRK05137 658172003354 TolB amino-terminal domain; Region: TolB_N; pfam04052 658172003355 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 658172003356 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 658172003357 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 658172003358 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 658172003359 Walker A motif; other site 658172003360 ATP binding site [chemical binding]; other site 658172003361 Walker B motif; other site 658172003362 arginine finger; other site 658172003363 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 658172003364 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 658172003365 RuvA N terminal domain; Region: RuvA_N; pfam01330 658172003366 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 658172003367 active site 658172003368 putative DNA-binding cleft [nucleotide binding]; other site 658172003369 dimer interface [polypeptide binding]; other site 658172003370 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 658172003371 active site 658172003372 DNA binding site [nucleotide binding] 658172003373 structural protein; Region: PHA01972 658172003374 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 658172003375 hypothetical protein; Region: PHA00661 658172003376 hypothetical protein; Region: PHA00662 658172003377 hypothetical protein; Region: PHA00670 658172003378 Bacteriophage head to tail connecting protein; Region: Head-tail_con; pfam12236 658172003379 Terminase-like family; Region: Terminase_6; pfam03237 658172003380 Helix-turn-helix domain; Region: HTH_19; pfam12844 658172003381 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 658172003382 non-specific DNA binding site [nucleotide binding]; other site 658172003383 salt bridge; other site 658172003384 sequence-specific DNA binding site [nucleotide binding]; other site 658172003385 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 658172003386 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 658172003387 non-specific DNA binding site [nucleotide binding]; other site 658172003388 salt bridge; other site 658172003389 sequence-specific DNA binding site [nucleotide binding]; other site 658172003390 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 658172003391 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 658172003392 non-specific DNA binding site [nucleotide binding]; other site 658172003393 salt bridge; other site 658172003394 sequence-specific DNA binding site [nucleotide binding]; other site 658172003395 Prophage antirepressor [Transcription]; Region: COG3617 658172003396 BRO family, N-terminal domain; Region: Bro-N; smart01040 658172003397 Predicted nucleotide-binding protein containing TIR-like domain; Region: TIR-like; cl17861 658172003398 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 658172003399 linker region; other site 658172003400 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 658172003401 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 658172003402 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 658172003403 D5 N terminal like; Region: D5_N; pfam08706 658172003404 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 658172003405 Protein of unknown function (DUF2800); Region: DUF2800; pfam10926 658172003406 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 658172003407 Prophage antirepressor [Transcription]; Region: COG3617 658172003408 BRO family, N-terminal domain; Region: Bro-N; smart01040 658172003409 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 658172003410 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 658172003411 active site 658172003412 substrate binding site [chemical binding]; other site 658172003413 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 658172003414 active site 658172003415 DNA binding site [nucleotide binding] 658172003416 catalytic site [active] 658172003417 VRR-NUC domain; Region: VRR_NUC; pfam08774 658172003418 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 658172003419 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 658172003420 ATP binding site [chemical binding]; other site 658172003421 putative Mg++ binding site [ion binding]; other site 658172003422 nucleotide binding region [chemical binding]; other site 658172003423 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 658172003424 ATP-binding site [chemical binding]; other site 658172003425 NAD-dependent DNA ligase LigA; Provisional; Region: ligA; PRK14351 658172003426 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 658172003427 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 658172003428 active site 658172003429 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 658172003430 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 658172003431 active site 658172003432 catalytic residues [active] 658172003433 DNA binding site [nucleotide binding] 658172003434 Int/Topo IB signature motif; other site