-- dump date 20140619_065042 -- class Genbank::misc_feature -- table misc_feature_note -- id note 868864000001 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 868864000002 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 868864000003 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 868864000004 DnaA N-terminal domain; Region: DnaA_N; pfam11638 868864000005 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 868864000006 Walker A motif; other site 868864000007 ATP binding site [chemical binding]; other site 868864000008 Walker B motif; other site 868864000009 arginine finger; other site 868864000010 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 868864000011 DnaA box-binding interface [nucleotide binding]; other site 868864000012 DNA polymerase III subunit beta; Validated; Region: PRK05643 868864000013 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 868864000014 putative DNA binding surface [nucleotide binding]; other site 868864000015 dimer interface [polypeptide binding]; other site 868864000016 beta-clamp/clamp loader binding surface; other site 868864000017 beta-clamp/translesion DNA polymerase binding surface; other site 868864000018 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 868864000019 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 868864000020 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 868864000021 substrate binding pocket [chemical binding]; other site 868864000022 chain length determination region; other site 868864000023 substrate-Mg2+ binding site; other site 868864000024 catalytic residues [active] 868864000025 aspartate-rich region 1; other site 868864000026 active site lid residues [active] 868864000027 aspartate-rich region 2; other site 868864000028 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 868864000029 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 868864000030 TPP-binding site; other site 868864000031 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 868864000032 PYR/PP interface [polypeptide binding]; other site 868864000033 dimer interface [polypeptide binding]; other site 868864000034 TPP binding site [chemical binding]; other site 868864000035 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 868864000036 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 868864000037 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 868864000038 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 868864000039 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 868864000040 dimerization interface [polypeptide binding]; other site 868864000041 active site 868864000042 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 868864000043 oligomer interface [polypeptide binding]; other site 868864000044 active site residues [active] 868864000045 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 868864000046 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 868864000047 Zn2+ binding site [ion binding]; other site 868864000048 Mg2+ binding site [ion binding]; other site 868864000049 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 868864000050 synthetase active site [active] 868864000051 NTP binding site [chemical binding]; other site 868864000052 metal binding site [ion binding]; metal-binding site 868864000053 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 868864000054 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 868864000055 glutamate racemase; Provisional; Region: PRK00865 868864000056 ribonuclease PH; Reviewed; Region: rph; PRK00173 868864000057 Ribonuclease PH; Region: RNase_PH_bact; cd11362 868864000058 hexamer interface [polypeptide binding]; other site 868864000059 active site 868864000060 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 868864000061 active site 868864000062 dimerization interface [polypeptide binding]; other site 868864000063 YGGT family; Region: YGGT; pfam02325 868864000064 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 868864000065 Beta subunit of integration host factor (IHFB); Region: IHF_B; cd13836 868864000066 dimer interface [polypeptide binding]; other site 868864000067 DNA binding site [nucleotide binding] 868864000068 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 868864000069 GDP-binding site [chemical binding]; other site 868864000070 ACT binding site; other site 868864000071 IMP binding site; other site 868864000072 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 868864000073 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 868864000074 dimer interface [polypeptide binding]; other site 868864000075 motif 1; other site 868864000076 active site 868864000077 motif 2; other site 868864000078 motif 3; other site 868864000079 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 868864000080 cysteine synthase; Region: PLN02565 868864000081 homodimer interface [polypeptide binding]; other site 868864000082 pyridoxal 5'-phosphate binding site [chemical binding]; other site 868864000083 catalytic residue [active] 868864000084 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 868864000085 dimer interface [polypeptide binding]; other site 868864000086 active site 868864000087 catalytic residue [active] 868864000088 Protoglobin; Region: Protoglobin; pfam11563 868864000089 Phosphate-starvation-inducible E; Region: PsiE; cl01264 868864000090 dihydrodipicolinate reductase; Provisional; Region: PRK00048 868864000091 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 868864000092 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 868864000093 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 868864000094 catalytic residues [active] 868864000095 MraW methylase family; Region: Methyltransf_5; cl17771 868864000096 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 868864000097 S-adenosylmethionine binding site [chemical binding]; other site 868864000098 Nitrogen regulatory protein P-II; Region: P-II; smart00938 868864000099 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 868864000100 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 868864000101 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 868864000102 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 868864000103 putative acyl-acceptor binding pocket; other site 868864000104 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Region: lytB_ispH; cd13944 868864000105 Fe-S cluster binding site [ion binding]; other site 868864000106 substrate binding site [chemical binding]; other site 868864000107 catalytic site [active] 868864000108 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 868864000109 RNA binding site [nucleotide binding]; other site 868864000110 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 868864000111 RNA binding site [nucleotide binding]; other site 868864000112 general stress protein 13; Validated; Region: PRK08059 868864000113 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 868864000114 RNA binding site [nucleotide binding]; other site 868864000115 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 868864000116 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 868864000117 SmpB-tmRNA interface; other site 868864000118 Sm and related proteins; Region: Sm_like; cl00259 868864000119 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 868864000120 putative oligomer interface [polypeptide binding]; other site 868864000121 putative RNA binding site [nucleotide binding]; other site 868864000122 NusA N-terminal domain; Region: NusA_N; pfam08529 868864000123 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 868864000124 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 868864000125 RNA binding site [nucleotide binding]; other site 868864000126 homodimer interface [polypeptide binding]; other site 868864000127 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 868864000128 G-X-X-G motif; other site 868864000129 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 868864000130 G-X-X-G motif; other site 868864000131 Protein of unknown function (DUF448); Region: DUF448; pfam04296 868864000132 putative RNA binding cleft [nucleotide binding]; other site 868864000133 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 868864000134 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 868864000135 substrate binding site [chemical binding]; other site 868864000136 ATP binding site [chemical binding]; other site 868864000137 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 868864000138 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 868864000139 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 868864000140 dimer interface [polypeptide binding]; other site 868864000141 putative CheW interface [polypeptide binding]; other site 868864000142 GTP-binding protein LepA; Provisional; Region: PRK05433 868864000143 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 868864000144 G1 box; other site 868864000145 putative GEF interaction site [polypeptide binding]; other site 868864000146 GTP/Mg2+ binding site [chemical binding]; other site 868864000147 Switch I region; other site 868864000148 G2 box; other site 868864000149 G3 box; other site 868864000150 Switch II region; other site 868864000151 G4 box; other site 868864000152 G5 box; other site 868864000153 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 868864000154 Elongation Factor G, domain II; Region: EFG_II; pfam14492 868864000155 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 868864000156 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 868864000157 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 868864000158 metal binding site [ion binding]; metal-binding site 868864000159 active site 868864000160 I-site; other site 868864000161 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 868864000162 active site 868864000163 phosphorylation site [posttranslational modification] 868864000164 intermolecular recognition site; other site 868864000165 dimerization interface [polypeptide binding]; other site 868864000166 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 868864000167 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 868864000168 active site 868864000169 phosphorylation site [posttranslational modification] 868864000170 intermolecular recognition site; other site 868864000171 dimerization interface [polypeptide binding]; other site 868864000172 PAS domain; Region: PAS_9; pfam13426 868864000173 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 868864000174 dimer interface [polypeptide binding]; other site 868864000175 putative CheW interface [polypeptide binding]; other site 868864000176 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 868864000177 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 868864000178 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 868864000179 putative binding surface; other site 868864000180 active site 868864000181 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 868864000182 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 868864000183 ATP binding site [chemical binding]; other site 868864000184 Mg2+ binding site [ion binding]; other site 868864000185 G-X-G motif; other site 868864000186 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 868864000187 large tegument protein UL36; Provisional; Region: PHA03246 868864000188 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 868864000189 Sm and related proteins; Region: Sm_like; cl00259 868864000190 heptamer interface [polypeptide binding]; other site 868864000191 Sm1 motif; other site 868864000192 hexamer interface [polypeptide binding]; other site 868864000193 RNA binding site [nucleotide binding]; other site 868864000194 Sm2 motif; other site 868864000195 bacterial Hfq-like; Region: Hfq; cd01716 868864000196 hexamer interface [polypeptide binding]; other site 868864000197 Sm1 motif; other site 868864000198 RNA binding site [nucleotide binding]; other site 868864000199 Sm2 motif; other site 868864000200 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 868864000201 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 868864000202 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 868864000203 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 868864000204 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 868864000205 carboxyltransferase (CT) interaction site; other site 868864000206 biotinylation site [posttranslational modification]; other site 868864000207 elongation factor P; Validated; Region: PRK00529 868864000208 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 868864000209 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 868864000210 RNA binding site [nucleotide binding]; other site 868864000211 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 868864000212 RNA binding site [nucleotide binding]; other site 868864000213 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 868864000214 AIR carboxylase; Region: AIRC; pfam00731 868864000215 Protein of unknown function DUF89; Region: DUF89; cl15397 868864000216 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 868864000217 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 868864000218 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 868864000219 putative active site [active] 868864000220 substrate binding site [chemical binding]; other site 868864000221 putative cosubstrate binding site; other site 868864000222 catalytic site [active] 868864000223 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 868864000224 substrate binding site [chemical binding]; other site 868864000225 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 868864000226 metal binding site 2 [ion binding]; metal-binding site 868864000227 putative DNA binding helix; other site 868864000228 metal binding site 1 [ion binding]; metal-binding site 868864000229 dimer interface [polypeptide binding]; other site 868864000230 structural Zn2+ binding site [ion binding]; other site 868864000231 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 868864000232 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 868864000233 Zn2+ binding site [ion binding]; other site 868864000234 Mg2+ binding site [ion binding]; other site 868864000235 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 868864000236 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 868864000237 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 868864000238 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 868864000239 Quinolinate synthetase A protein; Region: NadA; pfam02445 868864000240 GMP synthase; Reviewed; Region: guaA; PRK00074 868864000241 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 868864000242 AMP/PPi binding site [chemical binding]; other site 868864000243 candidate oxyanion hole; other site 868864000244 catalytic triad [active] 868864000245 potential glutamine specificity residues [chemical binding]; other site 868864000246 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 868864000247 ATP Binding subdomain [chemical binding]; other site 868864000248 Ligand Binding sites [chemical binding]; other site 868864000249 Dimerization subdomain; other site 868864000250 RelB antitoxin; Region: RelB; cl01171 868864000251 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 868864000252 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 868864000253 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 868864000254 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 868864000255 putative DNA binding site [nucleotide binding]; other site 868864000256 putative Zn2+ binding site [ion binding]; other site 868864000257 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 868864000258 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 868864000259 Catalytic site [active] 868864000260 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 868864000261 Protein of unknown function, DUF481; Region: DUF481; pfam04338 868864000262 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3416 868864000263 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 868864000264 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 868864000265 B12 binding site [chemical binding]; other site 868864000266 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 868864000267 FeS/SAM binding site; other site 868864000268 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl19910 868864000269 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 868864000270 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 868864000271 homodimer interface [polypeptide binding]; other site 868864000272 oligonucleotide binding site [chemical binding]; other site 868864000273 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 868864000274 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 868864000275 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 868864000276 binding surface 868864000277 TPR motif; other site 868864000278 Oligomerization domain; Region: Oligomerization; pfam02410 868864000279 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 868864000280 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 868864000281 Radical SAM superfamily; Region: Radical_SAM; pfam04055 868864000282 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 868864000283 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 868864000284 FeS/SAM binding site; other site 868864000285 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 868864000286 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 868864000287 dimerization interface [polypeptide binding]; other site 868864000288 ATP cone domain; Region: ATP-cone; pfam03477 868864000289 2-phosphoglycerate kinase; Provisional; Region: PRK04220 868864000290 ATP cone domain; Region: ATP-cone; pfam03477 868864000291 AAA domain; Region: AAA_17; cl19128 868864000292 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 868864000293 AMMECR1; Region: AMMECR1; cl00911 868864000294 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 868864000295 Peptidase family M50; Region: Peptidase_M50; pfam02163 868864000296 active site 868864000297 putative substrate binding region [chemical binding]; other site 868864000298 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 868864000299 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 868864000300 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 868864000301 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 868864000302 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 868864000303 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 868864000304 Part of AAA domain; Region: AAA_19; pfam13245 868864000305 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 868864000306 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 868864000307 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 868864000308 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 868864000309 catalytic residue [active] 868864000310 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl19519 868864000311 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 868864000312 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 868864000313 DpnII restriction endonuclease; Region: DpnII; pfam04556 868864000314 DNA methylase; Region: N6_N4_Mtase; pfam01555 868864000315 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 868864000316 S-adenosylmethionine binding site [chemical binding]; other site 868864000317 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 868864000318 active site 868864000319 dimer interface [polypeptide binding]; other site 868864000320 homoserine dehydrogenase; Provisional; Region: PRK06349 868864000321 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 868864000322 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 868864000323 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 868864000324 aminotransferase; Validated; Region: PRK08175 868864000325 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 868864000326 pyridoxal 5'-phosphate binding site [chemical binding]; other site 868864000327 homodimer interface [polypeptide binding]; other site 868864000328 catalytic residue [active] 868864000329 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 868864000330 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 868864000331 intersubunit interface [polypeptide binding]; other site 868864000332 FecCD transport family; Region: FecCD; pfam01032 868864000333 ABC-ATPase subunit interface; other site 868864000334 dimer interface [polypeptide binding]; other site 868864000335 putative PBP binding regions; other site 868864000336 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 868864000337 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 868864000338 Walker A/P-loop; other site 868864000339 ATP binding site [chemical binding]; other site 868864000340 Q-loop/lid; other site 868864000341 ABC transporter signature motif; other site 868864000342 Walker B; other site 868864000343 D-loop; other site 868864000344 H-loop/switch region; other site 868864000345 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 868864000346 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 868864000347 N-terminal plug; other site 868864000348 ligand-binding site [chemical binding]; other site 868864000349 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 868864000350 Transcriptional regulator [Transcription]; Region: LysR; COG0583 868864000351 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 868864000352 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 868864000353 dimerization interface [polypeptide binding]; other site 868864000354 Domain of unknown function (DUF309); Region: DUF309; pfam03745 868864000355 Histidinol phosphatase and related phosphatases [Amino acid transport and metabolism]; Region: HisB; COG0241 868864000356 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 868864000357 active site 868864000358 motif I; other site 868864000359 motif II; other site 868864000360 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 868864000361 active site 868864000362 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 868864000363 16S rRNA methyltransferase B; Provisional; Region: PRK14902 868864000364 putative RNA binding site [nucleotide binding]; other site 868864000365 NusB family; Region: NusB; pfam01029 868864000366 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 868864000367 S-adenosylmethionine binding site [chemical binding]; other site 868864000368 AAA domain; Region: AAA_17; cl19128 868864000369 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 868864000370 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 868864000371 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 868864000372 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 868864000373 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 868864000374 ATP-grasp domain; Region: ATP-grasp_4; cl17255 868864000375 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 868864000376 IMP binding site; other site 868864000377 dimer interface [polypeptide binding]; other site 868864000378 interdomain contacts; other site 868864000379 partial ornithine binding site; other site 868864000380 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 868864000381 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 868864000382 active site 868864000383 nucleotide binding site [chemical binding]; other site 868864000384 HIGH motif; other site 868864000385 KMSKS motif; other site 868864000386 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 868864000387 Glucose inhibited division protein A; Region: GIDA; pfam01134 868864000388 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 868864000389 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 868864000390 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 868864000391 substrate binding site [chemical binding]; other site 868864000392 hinge regions; other site 868864000393 ADP binding site [chemical binding]; other site 868864000394 catalytic site [active] 868864000395 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 868864000396 active site 868864000397 (T/H)XGH motif; other site 868864000398 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 868864000399 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 868864000400 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 868864000401 Ligand binding site; other site 868864000402 Putative Catalytic site; other site 868864000403 DXD motif; other site 868864000404 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 868864000405 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl19158 868864000406 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 868864000407 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl19158 868864000408 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 868864000409 NAD+ binding site [chemical binding]; other site 868864000410 substrate binding site [chemical binding]; other site 868864000411 Zn binding site [ion binding]; other site 868864000412 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 868864000413 signal recognition particle protein; Provisional; Region: PRK10867 868864000414 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 868864000415 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 868864000416 P loop; other site 868864000417 GTP binding site [chemical binding]; other site 868864000418 Signal peptide binding domain; Region: SRP_SPB; pfam02978 868864000419 Helix-turn-helix domain; Region: HTH_28; pfam13518 868864000420 Winged helix-turn helix; Region: HTH_29; pfam13551 868864000421 Homeodomain-like domain; Region: HTH_32; pfam13565 868864000422 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 868864000423 Integrase core domain; Region: rve; pfam00665 868864000424 Integrase core domain; Region: rve_3; pfam13683 868864000425 hypothetical protein; Provisional; Region: PRK00468 868864000426 G-X-X-G motif; other site 868864000427 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 868864000428 active site 868864000429 intersubunit interactions; other site 868864000430 catalytic residue [active] 868864000431 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 868864000432 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 868864000433 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 868864000434 LabA_like proteins; Region: LabA; cd10911 868864000435 Uncharacterized conserved protein [Function unknown]; Region: COG1432 868864000436 putative metal binding site [ion binding]; other site 868864000437 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 868864000438 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 868864000439 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 868864000440 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 868864000441 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 868864000442 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 868864000443 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 868864000444 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 868864000445 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 868864000446 tetramer interface [polypeptide binding]; other site 868864000447 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 868864000448 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 868864000449 G1 box; other site 868864000450 GTP/Mg2+ binding site [chemical binding]; other site 868864000451 Switch I region; other site 868864000452 G2 box; other site 868864000453 Switch II region; other site 868864000454 G3 box; other site 868864000455 G4 box; other site 868864000456 G5 box; other site 868864000457 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 868864000458 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 868864000459 FeS/SAM binding site; other site 868864000460 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 868864000461 biotin synthase; Provisional; Region: PRK07094 868864000462 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 868864000463 FeS/SAM binding site; other site 868864000464 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 868864000465 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 868864000466 HerA helicase [Replication, recombination, and repair]; Region: COG0433 868864000467 HAS barrel domain; Region: HAS-barrel; pfam09378 868864000468 Domain of unknown function DUF87; Region: DUF87; pfam01935 868864000469 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 868864000470 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 868864000471 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 868864000472 Largest subunit (beta') of bacterial DNA-dependent RNA polymerase (RNAP), N-terminal domain; Region: RNAP_beta'_N; cd01609 868864000473 beta and beta' interface [polypeptide binding]; other site 868864000474 beta' and sigma factor interface [polypeptide binding]; other site 868864000475 Zn-binding [ion binding]; other site 868864000476 active site region [active] 868864000477 catalytic site [active] 868864000478 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 868864000479 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 868864000480 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 868864000481 G-loop; other site 868864000482 DNA binding site [nucleotide binding] 868864000483 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 868864000484 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 868864000485 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl19478 868864000486 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 868864000487 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 868864000488 RPB1 interaction site [polypeptide binding]; other site 868864000489 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 868864000490 RPB10 interaction site [polypeptide binding]; other site 868864000491 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 868864000492 RPB11 interaction site [polypeptide binding]; other site 868864000493 RPB3 interaction site [polypeptide binding]; other site 868864000494 RPB12 interaction site [polypeptide binding]; other site 868864000495 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 868864000496 core dimer interface [polypeptide binding]; other site 868864000497 peripheral dimer interface [polypeptide binding]; other site 868864000498 L10 interface [polypeptide binding]; other site 868864000499 L11 interface [polypeptide binding]; other site 868864000500 putative EF-Tu interaction site [polypeptide binding]; other site 868864000501 putative EF-G interaction site [polypeptide binding]; other site 868864000502 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 868864000503 23S rRNA interface [nucleotide binding]; other site 868864000504 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 868864000505 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 868864000506 mRNA/rRNA interface [nucleotide binding]; other site 868864000507 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 868864000508 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 868864000509 23S rRNA interface [nucleotide binding]; other site 868864000510 L7/L12 interface [polypeptide binding]; other site 868864000511 putative thiostrepton binding site; other site 868864000512 L25 interface [polypeptide binding]; other site 868864000513 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 868864000514 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 868864000515 putative homodimer interface [polypeptide binding]; other site 868864000516 N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312; Region: DUF1312; cl02206 868864000517 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 868864000518 heterodimer interface [polypeptide binding]; other site 868864000519 homodimer interface [polypeptide binding]; other site 868864000520 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 868864000521 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 868864000522 elongation factor Tu; Reviewed; Region: PRK00049 868864000523 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 868864000524 G1 box; other site 868864000525 GEF interaction site [polypeptide binding]; other site 868864000526 GTP/Mg2+ binding site [chemical binding]; other site 868864000527 Switch I region; other site 868864000528 G2 box; other site 868864000529 G3 box; other site 868864000530 Switch II region; other site 868864000531 G4 box; other site 868864000532 G5 box; other site 868864000533 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 868864000534 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 868864000535 Antibiotic Binding Site [chemical binding]; other site 868864000536 Alginate export; Region: Alginate_exp; pfam13372 868864000537 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 868864000538 30S subunit binding site; other site 868864000539 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 868864000540 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 868864000541 Ligand Binding Site [chemical binding]; other site 868864000542 Domain of unknown function (DUF814); Region: DUF814; pfam05670 868864000543 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 868864000544 Ligand Binding Site [chemical binding]; other site 868864000545 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 868864000546 Ligand Binding Site [chemical binding]; other site 868864000547 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 868864000548 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 868864000549 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 868864000550 TPP-binding site [chemical binding]; other site 868864000551 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 868864000552 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 868864000553 dimer interface [polypeptide binding]; other site 868864000554 PYR/PP interface [polypeptide binding]; other site 868864000555 TPP binding site [chemical binding]; other site 868864000556 substrate binding site [chemical binding]; other site 868864000557 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 868864000558 Ferredoxin [Energy production and conversion]; Region: COG1146 868864000559 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 868864000560 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 868864000561 CoA binding domain; Region: CoA_binding; smart00881 868864000562 CoA-ligase; Region: Ligase_CoA; pfam00549 868864000563 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 868864000564 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 868864000565 CoA-ligase; Region: Ligase_CoA; pfam00549 868864000566 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 868864000567 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 868864000568 dimerization interface [polypeptide binding]; other site 868864000569 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 868864000570 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 868864000571 Zn2+ binding site [ion binding]; other site 868864000572 Mg2+ binding site [ion binding]; other site 868864000573 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 868864000574 metal binding site [ion binding]; metal-binding site 868864000575 nucleotidyl binding site; other site 868864000576 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 868864000577 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 868864000578 Cysteine-rich domain; Region: CCG; pfam02754 868864000579 Cysteine-rich domain; Region: CCG; pfam02754 868864000580 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 868864000581 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 868864000582 FAD binding pocket [chemical binding]; other site 868864000583 FAD binding motif [chemical binding]; other site 868864000584 phosphate binding motif [ion binding]; other site 868864000585 beta-alpha-beta structure motif; other site 868864000586 NAD binding pocket [chemical binding]; other site 868864000587 Iron coordination center [ion binding]; other site 868864000588 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 868864000589 Guanylate kinase; Region: Guanylate_kin; pfam00625 868864000590 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 868864000591 catalytic site [active] 868864000592 G-X2-G-X-G-K; other site 868864000593 Protein of unknown function (DUF342); Region: DUF342; cl19219 868864000594 hypothetical protein; Provisional; Region: PRK11820 868864000595 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 868864000596 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 868864000597 SurA N-terminal domain; Region: SurA_N_3; cl07813 868864000598 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 868864000599 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 868864000600 binding surface 868864000601 Tetratricopeptide repeat; Region: TPR_16; pfam13432 868864000602 TPR motif; other site 868864000603 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 868864000604 binding surface 868864000605 TPR motif; other site 868864000606 TPR repeat; Region: TPR_11; pfam13414 868864000607 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 868864000608 16S/18S rRNA binding site [nucleotide binding]; other site 868864000609 S13e-L30e interaction site [polypeptide binding]; other site 868864000610 25S rRNA binding site [nucleotide binding]; other site 868864000611 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 868864000612 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 868864000613 RNase E interface [polypeptide binding]; other site 868864000614 trimer interface [polypeptide binding]; other site 868864000615 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 868864000616 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 868864000617 RNase E interface [polypeptide binding]; other site 868864000618 trimer interface [polypeptide binding]; other site 868864000619 active site 868864000620 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 868864000621 putative nucleic acid binding region [nucleotide binding]; other site 868864000622 G-X-X-G motif; other site 868864000623 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 868864000624 RNA binding site [nucleotide binding]; other site 868864000625 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 868864000626 trimer interface [polypeptide binding]; other site 868864000627 active site 868864000628 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 868864000629 2-isopropylmalate synthase; Validated; Region: PRK00915 868864000630 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 868864000631 active site 868864000632 catalytic residues [active] 868864000633 metal binding site [ion binding]; metal-binding site 868864000634 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 868864000635 Transposase; Region: DEDD_Tnp_IS110; pfam01548 868864000636 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 868864000637 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 868864000638 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 868864000639 S17 interaction site [polypeptide binding]; other site 868864000640 S8 interaction site; other site 868864000641 16S rRNA interaction site [nucleotide binding]; other site 868864000642 streptomycin interaction site [chemical binding]; other site 868864000643 23S rRNA interaction site [nucleotide binding]; other site 868864000644 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 868864000645 30S ribosomal protein S7; Validated; Region: PRK05302 868864000646 elongation factor G; Reviewed; Region: PRK00007 868864000647 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 868864000648 G1 box; other site 868864000649 putative GEF interaction site [polypeptide binding]; other site 868864000650 GTP/Mg2+ binding site [chemical binding]; other site 868864000651 Switch I region; other site 868864000652 G2 box; other site 868864000653 G3 box; other site 868864000654 Switch II region; other site 868864000655 G4 box; other site 868864000656 G5 box; other site 868864000657 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 868864000658 Elongation Factor G, domain II; Region: EFG_II; pfam14492 868864000659 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 868864000660 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 868864000661 elongation factor Tu; Reviewed; Region: PRK00049 868864000662 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 868864000663 G1 box; other site 868864000664 GEF interaction site [polypeptide binding]; other site 868864000665 GTP/Mg2+ binding site [chemical binding]; other site 868864000666 Switch I region; other site 868864000667 G2 box; other site 868864000668 G3 box; other site 868864000669 Switch II region; other site 868864000670 G4 box; other site 868864000671 G5 box; other site 868864000672 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 868864000673 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 868864000674 Antibiotic Binding Site [chemical binding]; other site 868864000675 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 868864000676 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 868864000677 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 868864000678 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 868864000679 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 868864000680 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 868864000681 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 868864000682 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 868864000683 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 868864000684 putative translocon binding site; other site 868864000685 protein-rRNA interface [nucleotide binding]; other site 868864000686 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 868864000687 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 868864000688 G-X-X-G motif; other site 868864000689 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 868864000690 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 868864000691 23S rRNA interface [nucleotide binding]; other site 868864000692 5S rRNA interface [nucleotide binding]; other site 868864000693 putative antibiotic binding site [chemical binding]; other site 868864000694 L25 interface [polypeptide binding]; other site 868864000695 L27 interface [polypeptide binding]; other site 868864000696 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 868864000697 putative translocon interaction site; other site 868864000698 23S rRNA interface [nucleotide binding]; other site 868864000699 signal recognition particle (SRP54) interaction site; other site 868864000700 L23 interface [polypeptide binding]; other site 868864000701 trigger factor interaction site; other site 868864000702 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 868864000703 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 868864000704 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 868864000705 RNA binding site [nucleotide binding]; other site 868864000706 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 868864000707 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 868864000708 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 868864000709 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 868864000710 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 868864000711 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 868864000712 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 868864000713 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 868864000714 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 868864000715 5S rRNA interface [nucleotide binding]; other site 868864000716 L27 interface [polypeptide binding]; other site 868864000717 23S rRNA interface [nucleotide binding]; other site 868864000718 L5 interface [polypeptide binding]; other site 868864000719 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 868864000720 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 868864000721 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 868864000722 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 868864000723 23S rRNA binding site [nucleotide binding]; other site 868864000724 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 868864000725 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 868864000726 SecY translocase; Region: SecY; pfam00344 868864000727 adenylate kinase; Reviewed; Region: adk; PRK00279 868864000728 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 868864000729 AMP-binding site [chemical binding]; other site 868864000730 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 868864000731 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 868864000732 active site 868864000733 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 868864000734 rRNA binding site [nucleotide binding]; other site 868864000735 predicted 30S ribosome binding site; other site 868864000736 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 868864000737 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 868864000738 30S ribosomal protein S11; Validated; Region: PRK05309 868864000739 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 868864000740 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 868864000741 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 868864000742 RNA binding surface [nucleotide binding]; other site 868864000743 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 868864000744 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 868864000745 alphaNTD homodimer interface [polypeptide binding]; other site 868864000746 alphaNTD - beta interaction site [polypeptide binding]; other site 868864000747 alphaNTD - beta' interaction site [polypeptide binding]; other site 868864000748 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 868864000749 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 868864000750 Septum formation topological specificity factor MinE; Region: MinE; cl00538 868864000751 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 868864000752 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 868864000753 P-loop; other site 868864000754 ADP binding residues [chemical binding]; other site 868864000755 Switch I; other site 868864000756 Switch II; other site 868864000757 Septum formation inhibitor [Cell division and chromosome partitioning]; Region: MinC; COG0850 868864000758 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 868864000759 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 868864000760 putative active site [active] 868864000761 Mn binding site [ion binding]; other site 868864000762 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 868864000763 S-adenosylmethionine binding site [chemical binding]; other site 868864000764 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 868864000765 S-adenosylmethionine binding site [chemical binding]; other site 868864000766 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 868864000767 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 868864000768 active site 868864000769 catalytic residues [active] 868864000770 metal binding site [ion binding]; metal-binding site 868864000771 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 868864000772 aspartate kinase; Reviewed; Region: PRK06635 868864000773 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 868864000774 putative nucleotide binding site [chemical binding]; other site 868864000775 putative catalytic residues [active] 868864000776 putative Mg ion binding site [ion binding]; other site 868864000777 putative aspartate binding site [chemical binding]; other site 868864000778 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 868864000779 putative allosteric regulatory site; other site 868864000780 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AK-LysC-DapG-like_2; cd04923 868864000781 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 868864000782 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 868864000783 active site 868864000784 dimer interface [polypeptide binding]; other site 868864000785 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 868864000786 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 868864000787 active site 868864000788 FMN binding site [chemical binding]; other site 868864000789 substrate binding site [chemical binding]; other site 868864000790 3Fe-4S cluster binding site [ion binding]; other site 868864000791 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 868864000792 domain_subunit interface; other site 868864000793 Helix-turn-helix domain; Region: HTH_28; pfam13518 868864000794 Winged helix-turn helix; Region: HTH_29; pfam13551 868864000795 Homeodomain-like domain; Region: HTH_32; pfam13565 868864000796 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 868864000797 Integrase core domain; Region: rve; pfam00665 868864000798 Integrase core domain; Region: rve_3; pfam13683 868864000799 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 868864000800 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 868864000801 Purine nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pnp; COG0005 868864000802 hypothetical protein; Provisional; Region: PRK14013 868864000803 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 868864000804 putative active site [active] 868864000805 Rubredoxin [Energy production and conversion]; Region: COG1773 868864000806 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 868864000807 iron binding site [ion binding]; other site 868864000808 Protein of unknown function (DUF503); Region: DUF503; pfam04456 868864000809 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 868864000810 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 868864000811 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 868864000812 Putative lysophospholipase; Region: Hydrolase_4; cl19140 868864000813 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 868864000814 putative active site pocket [active] 868864000815 dimerization interface [polypeptide binding]; other site 868864000816 putative catalytic residue [active] 868864000817 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 868864000818 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 868864000819 ATP binding site [chemical binding]; other site 868864000820 Mg2+ binding site [ion binding]; other site 868864000821 G-X-G motif; other site 868864000822 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 868864000823 anchoring element; other site 868864000824 dimer interface [polypeptide binding]; other site 868864000825 ATP binding site [chemical binding]; other site 868864000826 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 868864000827 active site 868864000828 putative metal-binding site [ion binding]; other site 868864000829 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 868864000830 FOG: WD40 repeat [General function prediction only]; Region: COG2319 868864000831 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 868864000832 structural tetrad; other site 868864000833 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 868864000834 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 868864000835 tryptophan tryptophylquinone biosynthesis enzyme MauG; Region: TTQ_mauG; TIGR03791 868864000836 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 868864000837 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 868864000838 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 868864000839 ligand binding site [chemical binding]; other site 868864000840 NAD binding site [chemical binding]; other site 868864000841 dimerization interface [polypeptide binding]; other site 868864000842 catalytic site [active] 868864000843 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 868864000844 putative L-serine binding site [chemical binding]; other site 868864000845 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 868864000846 active site 868864000847 Zn binding site [ion binding]; other site 868864000848 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 868864000849 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 868864000850 potential frameshift: common BLAST hit: gi|170289898|ref|YP_001736714.1| anaerobic ribonucleoside-triphosphate reductase 868864000851 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 868864000852 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 868864000853 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 868864000854 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 868864000855 FeS/SAM binding site; other site 868864000856 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 868864000857 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 868864000858 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 868864000859 substrate binding site [chemical binding]; other site 868864000860 THF binding site; other site 868864000861 zinc-binding site [ion binding]; other site 868864000862 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 868864000863 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 868864000864 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07088 868864000865 ATP cone domain; Region: ATP-cone; pfam03477 868864000866 Class I ribonucleotide reductase; Region: RNR_I; cd01679 868864000867 active site 868864000868 dimer interface [polypeptide binding]; other site 868864000869 catalytic residues [active] 868864000870 effector binding site; other site 868864000871 R2 peptide binding site; other site 868864000872 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 868864000873 dimer interface [polypeptide binding]; other site 868864000874 putative radical transfer pathway; other site 868864000875 diiron center [ion binding]; other site 868864000876 tyrosyl radical; other site 868864000877 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 868864000878 catalytic core [active] 868864000879 manganese transport transcriptional regulator; Provisional; Region: PRK03902 868864000880 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 868864000881 Iron dependent repressor, metal binding and dimerization domain; Region: Fe_dep_repr_C; pfam02742 868864000882 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 868864000883 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 868864000884 FeS/SAM binding site; other site 868864000885 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 868864000886 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 868864000887 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 868864000888 active site 868864000889 dimer interface [polypeptide binding]; other site 868864000890 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 868864000891 dimer interface [polypeptide binding]; other site 868864000892 active site 868864000893 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 868864000894 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 868864000895 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 868864000896 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 868864000897 4Fe-4S binding domain; Region: Fer4_5; pfam12801 868864000898 4Fe-4S binding domain; Region: Fer4_5; pfam12801 868864000899 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 868864000900 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 868864000901 Probable transposase; Region: OrfB_IS605; pfam01385 868864000902 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 868864000903 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 868864000904 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 868864000905 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 868864000906 DNA binding residues [nucleotide binding] 868864000907 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 868864000908 catalytic residues [active] 868864000909 catalytic nucleophile [active] 868864000910 GTPase CgtA; Reviewed; Region: obgE; PRK12299 868864000911 GTP1/OBG; Region: GTP1_OBG; pfam01018 868864000912 Obg GTPase; Region: Obg; cd01898 868864000913 G1 box; other site 868864000914 GTP/Mg2+ binding site [chemical binding]; other site 868864000915 Switch I region; other site 868864000916 G2 box; other site 868864000917 G3 box; other site 868864000918 Switch II region; other site 868864000919 G4 box; other site 868864000920 G5 box; other site 868864000921 gamma-glutamyl kinase; Provisional; Region: PRK05429 868864000922 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 868864000923 nucleotide binding site [chemical binding]; other site 868864000924 homotetrameric interface [polypeptide binding]; other site 868864000925 putative phosphate binding site [ion binding]; other site 868864000926 putative allosteric binding site; other site 868864000927 PUA domain; Region: PUA; pfam01472 868864000928 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 868864000929 CoenzymeA binding site [chemical binding]; other site 868864000930 subunit interaction site [polypeptide binding]; other site 868864000931 PHB binding site; other site 868864000932 peptide chain release factor 1; Validated; Region: prfA; PRK00591 868864000933 This domain is found in peptide chain release factors; Region: PCRF; smart00937 868864000934 RF-1 domain; Region: RF-1; pfam00472 868864000935 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 868864000936 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 868864000937 FeS/SAM binding site; other site 868864000938 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 868864000939 Transposase; Region: DEDD_Tnp_IS110; pfam01548 868864000940 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 868864000941 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 868864000942 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 868864000943 substrate binding site [chemical binding]; other site 868864000944 active site 868864000945 acetyl-CoA synthetase; Provisional; Region: PRK00174 868864000946 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 868864000947 active site 868864000948 CoA binding site [chemical binding]; other site 868864000949 acyl-activating enzyme (AAE) consensus motif; other site 868864000950 AMP binding site [chemical binding]; other site 868864000951 acetate binding site [chemical binding]; other site 868864000952 Competence protein; Region: Competence; pfam03772 868864000953 diaminopimelate decarboxylase; Region: lysA; TIGR01048 868864000954 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 868864000955 active site 868864000956 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 868864000957 substrate binding site [chemical binding]; other site 868864000958 catalytic residues [active] 868864000959 dimer interface [polypeptide binding]; other site 868864000960 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 868864000961 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 868864000962 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 868864000963 transmembrane helices; other site 868864000964 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 868864000965 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 868864000966 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 868864000967 GIY-YIG domain of hypothetical proteins from archaea and their bacterial homologs; Region: GIY-YIG_COG1833; cd10441 868864000968 GIY-YIG motif/motif A; other site 868864000969 putative active site [active] 868864000970 putative metal binding site [ion binding]; other site 868864000971 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 868864000972 active site 868864000973 NTP binding site [chemical binding]; other site 868864000974 metal binding triad [ion binding]; metal-binding site 868864000975 antibiotic binding site [chemical binding]; other site 868864000976 protoporphyrinogen oxidase; Region: proto_IX_ox; TIGR00562 868864000977 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 868864000978 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 868864000979 Ferrochelatase; Region: Ferrochelatase; pfam00762 868864000980 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 868864000981 C-terminal domain interface [polypeptide binding]; other site 868864000982 active site 868864000983 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 868864000984 active site 868864000985 N-terminal domain interface [polypeptide binding]; other site 868864000986 Uncharacterized conserved protein [Function unknown]; Region: COG0432 868864000987 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 868864000988 Clostripain family; Region: Peptidase_C11; pfam03415 868864000989 Thiamine monophosphate kinase [Coenzyme metabolism]; Region: ThiL; COG0611 868864000990 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 868864000991 ATP binding site [chemical binding]; other site 868864000992 dimerization interface [polypeptide binding]; other site 868864000993 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 868864000994 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 868864000995 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 868864000996 Walker A motif; other site 868864000997 ATP binding site [chemical binding]; other site 868864000998 Walker B motif; other site 868864000999 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 868864001000 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 868864001001 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 868864001002 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 868864001003 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 868864001004 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 868864001005 dimer interface [polypeptide binding]; other site 868864001006 motif 1; other site 868864001007 active site 868864001008 motif 2; other site 868864001009 motif 3; other site 868864001010 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 868864001011 anticodon binding site; other site 868864001012 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 868864001013 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 868864001014 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 868864001015 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 868864001016 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 868864001017 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 868864001018 homodimer interface [polypeptide binding]; other site 868864001019 Walker A motif; other site 868864001020 ATP binding site [chemical binding]; other site 868864001021 hydroxycobalamin binding site [chemical binding]; other site 868864001022 Walker B motif; other site 868864001023 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 868864001024 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 868864001025 FeS/SAM binding site; other site 868864001026 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 868864001027 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 868864001028 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 868864001029 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 868864001030 putative acyl-acceptor binding pocket; other site 868864001031 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 868864001032 bacterial Hfq-like; Region: Hfq; cd01716 868864001033 hexamer interface [polypeptide binding]; other site 868864001034 Sm1 motif; other site 868864001035 RNA binding site [nucleotide binding]; other site 868864001036 Sm2 motif; other site 868864001037 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 868864001038 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 868864001039 Mitochondrial ATPase inhibitor, IATP; Region: IATP; pfam04568 868864001040 Domain of unknown function (DUF814); Region: DUF814; pfam05670 868864001041 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 868864001042 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 868864001043 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 868864001044 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 868864001045 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 868864001046 feedback inhibition sensing region; other site 868864001047 homohexameric interface [polypeptide binding]; other site 868864001048 nucleotide binding site [chemical binding]; other site 868864001049 N-acetyl-L-glutamate binding site [chemical binding]; other site 868864001050 Flavoprotein; Region: Flavoprotein; cl19190 868864001051 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 868864001052 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 868864001053 motif 1; other site 868864001054 dimer interface [polypeptide binding]; other site 868864001055 active site 868864001056 motif 2; other site 868864001057 motif 3; other site 868864001058 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 868864001059 active site 868864001060 metal binding site [ion binding]; metal-binding site 868864001061 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 868864001062 NAD(P) binding site [chemical binding]; other site 868864001063 catalytic residues [active] 868864001064 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 868864001065 putative active site; other site 868864001066 catalytic residue [active] 868864001067 Transposase; Region: DEDD_Tnp_IS110; pfam01548 868864001068 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 868864001069 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 868864001070 Thymidylate synthase complementing protein; Region: Thy1; pfam02511 868864001071 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 868864001072 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 868864001073 Helix-turn-helix domain; Region: HTH_28; pfam13518 868864001074 Winged helix-turn helix; Region: HTH_29; pfam13551 868864001075 Homeodomain-like domain; Region: HTH_32; pfam13565 868864001076 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 868864001077 Integrase core domain; Region: rve; pfam00665 868864001078 Integrase core domain; Region: rve_3; pfam13683 868864001079 M20 Peptidase actinobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_actinobac; cd05647 868864001080 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13007 868864001081 metal binding site [ion binding]; metal-binding site 868864001082 putative dimer interface [polypeptide binding]; other site 868864001083 L-aspartate oxidase; Provisional; Region: PRK06175 868864001084 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 868864001085 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 868864001086 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 868864001087 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 868864001088 Sporulation related domain; Region: SPOR; pfam05036 868864001089 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 868864001090 active site 868864001091 intersubunit interface [polypeptide binding]; other site 868864001092 zinc binding site [ion binding]; other site 868864001093 Na+ binding site [ion binding]; other site 868864001094 Predicted GTPases [General function prediction only]; Region: COG1162 868864001095 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 868864001096 RNA binding site [nucleotide binding]; other site 868864001097 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 868864001098 GTPase/Zn-binding domain interface [polypeptide binding]; other site 868864001099 GTP/Mg2+ binding site [chemical binding]; other site 868864001100 G4 box; other site 868864001101 G5 box; other site 868864001102 G1 box; other site 868864001103 Switch I region; other site 868864001104 G2 box; other site 868864001105 G3 box; other site 868864001106 Switch II region; other site 868864001107 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 868864001108 oligomerization interface [polypeptide binding]; other site 868864001109 active site 868864001110 metal binding site [ion binding]; metal-binding site 868864001111 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 868864001112 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 868864001113 Walker A/P-loop; other site 868864001114 ATP binding site [chemical binding]; other site 868864001115 Q-loop/lid; other site 868864001116 ABC transporter signature motif; other site 868864001117 Walker B; other site 868864001118 D-loop; other site 868864001119 H-loop/switch region; other site 868864001120 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 868864001121 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 868864001122 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 868864001123 active site 868864001124 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 868864001125 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 868864001126 active site 868864001127 metal binding site [ion binding]; metal-binding site 868864001128 DNA binding site [nucleotide binding] 868864001129 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 868864001130 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 868864001131 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 868864001132 pyridoxal 5'-phosphate binding site [chemical binding]; other site 868864001133 homodimer interface [polypeptide binding]; other site 868864001134 catalytic residue [active] 868864001135 Competence-damaged protein; Region: CinA; pfam02464 868864001136 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 868864001137 catalytic center binding site [active] 868864001138 ATP binding site [chemical binding]; other site 868864001139 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 868864001140 Zn2+ binding site [ion binding]; other site 868864001141 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09680 868864001142 Mg2+ binding site [ion binding]; other site 868864001143 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 868864001144 Zn2+ binding site [ion binding]; other site 868864001145 Mg2+ binding site [ion binding]; other site 868864001146 GTP-binding protein Der; Reviewed; Region: PRK00093 868864001147 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 868864001148 G1 box; other site 868864001149 GTP/Mg2+ binding site [chemical binding]; other site 868864001150 Switch I region; other site 868864001151 G2 box; other site 868864001152 Switch II region; other site 868864001153 G3 box; other site 868864001154 G4 box; other site 868864001155 G5 box; other site 868864001156 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 868864001157 G1 box; other site 868864001158 GTP/Mg2+ binding site [chemical binding]; other site 868864001159 Switch I region; other site 868864001160 G2 box; other site 868864001161 G3 box; other site 868864001162 Switch II region; other site 868864001163 G4 box; other site 868864001164 G5 box; other site 868864001165 KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; Region: KH_dom-like; pfam14714 868864001166 Transposase; Region: DEDD_Tnp_IS110; pfam01548 868864001167 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 868864001168 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 868864001169 Probable transposase; Region: OrfB_IS605; pfam01385 868864001170 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 868864001171 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 868864001172 Putative exonuclease, RdgC; Region: RdgC; cl01122 868864001173 DNA helicase, putative; Region: TIGR00376 868864001174 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 868864001175 Walker A motif; other site 868864001176 ATP binding site [chemical binding]; other site 868864001177 AAA domain; Region: AAA_12; pfam13087 868864001178 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 868864001179 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 868864001180 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 868864001181 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 868864001182 DNA polymerase I; Provisional; Region: PRK05755 868864001183 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 868864001184 active site 868864001185 metal binding site 1 [ion binding]; metal-binding site 868864001186 putative 5' ssDNA interaction site; other site 868864001187 metal binding site 3; metal-binding site 868864001188 metal binding site 2 [ion binding]; metal-binding site 868864001189 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 868864001190 putative DNA binding site [nucleotide binding]; other site 868864001191 putative metal binding site [ion binding]; other site 868864001192 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 868864001193 active site 868864001194 substrate binding site [chemical binding]; other site 868864001195 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 868864001196 active site 868864001197 DNA binding site [nucleotide binding] 868864001198 catalytic site [active] 868864001199 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 868864001200 S-adenosylmethionine binding site [chemical binding]; other site 868864001201 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 868864001202 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 868864001203 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cl19048 868864001204 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 868864001205 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 868864001206 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 868864001207 Trp docking motif [polypeptide binding]; other site 868864001208 active site 868864001209 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 868864001210 Cytochrome c3; Region: Cytochrom_c3_2; pfam14537 868864001211 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 868864001212 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 868864001213 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 868864001214 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 868864001215 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 868864001216 Cytochrome c3; Region: Cytochrom_c3_2; pfam14537 868864001217 Helix-turn-helix domain; Region: HTH_28; pfam13518 868864001218 Winged helix-turn helix; Region: HTH_29; pfam13551 868864001219 Homeodomain-like domain; Region: HTH_32; pfam13565 868864001220 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 868864001221 Integrase core domain; Region: rve; pfam00665 868864001222 Integrase core domain; Region: rve_3; pfam13683 868864001223 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 868864001224 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 868864001225 glutaminase active site [active] 868864001226 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 868864001227 dimer interface [polypeptide binding]; other site 868864001228 active site 868864001229 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 868864001230 dimer interface [polypeptide binding]; other site 868864001231 active site 868864001232 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 868864001233 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 868864001234 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 868864001235 putative active site [active] 868864001236 putative substrate binding site [chemical binding]; other site 868864001237 putative cosubstrate binding site; other site 868864001238 catalytic site [active] 868864001239 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 868864001240 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 868864001241 EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase); Region: EPSP_synthase; pfam00275 868864001242 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 868864001243 hinge; other site 868864001244 active site 868864001245 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 868864001246 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 868864001247 S-adenosylmethionine binding site [chemical binding]; other site 868864001248 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 868864001249 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 868864001250 dimer interface [polypeptide binding]; other site 868864001251 PYR/PP interface [polypeptide binding]; other site 868864001252 TPP binding site [chemical binding]; other site 868864001253 substrate binding site [chemical binding]; other site 868864001254 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 868864001255 TPP-binding site; other site 868864001256 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 868864001257 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 868864001258 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 868864001259 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 868864001260 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 868864001261 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 868864001262 Beta-Casp domain; Region: Beta-Casp; pfam10996 868864001263 RNA-metabolizing metallo-beta-lactamase; Region: RMMBL; pfam07521 868864001264 reverse gyrase; Reviewed; Region: PRK09401 868864001265 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 868864001266 ATP binding site [chemical binding]; other site 868864001267 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 868864001268 nucleotide binding region [chemical binding]; other site 868864001269 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 868864001270 active site 868864001271 metal binding site [ion binding]; metal-binding site 868864001272 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 868864001273 domain I; other site 868864001274 DNA binding groove [nucleotide binding] 868864001275 phosphate binding site [ion binding]; other site 868864001276 domain II; other site 868864001277 domain III; other site 868864001278 nucleotide binding site [chemical binding]; other site 868864001279 catalytic site [active] 868864001280 domain IV; other site 868864001281 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cd00518 868864001282 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 868864001283 nickel binding site [ion binding]; other site 868864001284 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 868864001285 Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]; Region: FrhG; COG1941 868864001286 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 868864001287 NiFe/NiFeSe hydrogenase small subunit C-terminal; Region: NiFe_hyd_SSU_C; pfam14720 868864001288 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 868864001289 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 868864001290 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 868864001291 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 868864001292 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 868864001293 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 868864001294 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 868864001295 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 868864001296 RNA binding site [nucleotide binding]; other site 868864001297 active site 868864001298 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 868864001299 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 868864001300 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 868864001301 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 868864001302 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 868864001303 Pilus assembly protein, PilO; Region: PilO; cl01234 868864001304 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 868864001305 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 868864001306 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 868864001307 nucleotide binding site [chemical binding]; other site 868864001308 Cell division protein FtsA; Region: FtsA; pfam14450 868864001309 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 868864001310 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 868864001311 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 868864001312 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 868864001313 type II secretion system protein E; Region: type_II_gspE; TIGR02533 868864001314 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 868864001315 Walker A motif; other site 868864001316 ATP binding site [chemical binding]; other site 868864001317 Walker B motif; other site 868864001318 type II secretion system protein D; Region: type_II_gspD; TIGR02517 868864001319 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 868864001320 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 868864001321 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 868864001322 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 868864001323 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 868864001324 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 868864001325 PDZ domain of trypsin-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 868864001326 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 868864001327 DHH family; Region: DHH; pfam01368 868864001328 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 868864001329 FOG: CBS domain [General function prediction only]; Region: COG0517 868864001330 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 868864001331 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 868864001332 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 868864001333 active site 868864001334 NTP binding site [chemical binding]; other site 868864001335 metal binding triad [ion binding]; metal-binding site 868864001336 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 868864001337 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 868864001338 Probable transposase; Region: OrfB_IS605; pfam01385 868864001339 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 868864001340 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 868864001341 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 868864001342 substrate binding pocket [chemical binding]; other site 868864001343 dimer interface [polypeptide binding]; other site 868864001344 inhibitor binding site; inhibition site 868864001345 Uncharacterized conserved protein [Function unknown]; Region: COG1624 868864001346 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 868864001347 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 868864001348 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 868864001349 active site 868864001350 substrate binding site [chemical binding]; other site 868864001351 metal binding site [ion binding]; metal-binding site 868864001352 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 868864001353 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 868864001354 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 868864001355 Transglutaminase/protease-like homologues; Region: TGc; smart00460 868864001356 Domain of Unknown Function with PDB structure (DUF3858); Region: DUF3858; pfam12970 868864001357 UGMP family protein; Validated; Region: PRK09604 868864001358 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 868864001359 Outer membrane efflux protein; Region: OEP; pfam02321 868864001360 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 868864001361 Outer membrane efflux protein; Region: OEP; pfam02321 868864001362 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 868864001363 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 868864001364 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 868864001365 HlyD family secretion protein; Region: HlyD_3; pfam13437 868864001366 putative membrane fusion protein; Region: TIGR02828 868864001367 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 868864001368 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 868864001369 Walker A/P-loop; other site 868864001370 ATP binding site [chemical binding]; other site 868864001371 Q-loop/lid; other site 868864001372 ABC transporter signature motif; other site 868864001373 Walker B; other site 868864001374 D-loop; other site 868864001375 H-loop/switch region; other site 868864001376 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 868864001377 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 868864001378 FtsX-like permease family; Region: FtsX; pfam02687 868864001379 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 868864001380 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 868864001381 FtsX-like permease family; Region: FtsX; pfam02687 868864001382 NgoPII restriction endonuclease; Region: RE_NgoPII; pfam09521 868864001383 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 868864001384 cofactor binding site; other site 868864001385 DNA binding site [nucleotide binding] 868864001386 substrate interaction site [chemical binding]; other site 868864001387 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 868864001388 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 868864001389 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 868864001390 P loop; other site 868864001391 GTP binding site [chemical binding]; other site 868864001392 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 868864001393 Flavoprotein; Region: Flavoprotein; cl19190 868864001394 DNA / pantothenate metabolizm flavoprotein; Region: DFP; pfam04127 868864001395 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 868864001396 Cl- selectivity filter; other site 868864001397 Cl- binding residues [ion binding]; other site 868864001398 pore gating glutamate residue; other site 868864001399 dimer interface [polypeptide binding]; other site 868864001400 Peptidase family M48; Region: Peptidase_M48; cl12018 868864001401 cytidylate kinase; Provisional; Region: cmk; PRK00023 868864001402 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 868864001403 CMP-binding site; other site 868864001404 The sites determining sugar specificity; other site 868864001405 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 868864001406 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 868864001407 active site 868864001408 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 868864001409 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 868864001410 minor groove reading motif; other site 868864001411 helix-hairpin-helix signature motif; other site 868864001412 substrate binding pocket [chemical binding]; other site 868864001413 active site 868864001414 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 868864001415 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 868864001416 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 868864001417 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 868864001418 catalytic residues [active] 868864001419 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 868864001420 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 868864001421 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 868864001422 catalytic loop [active] 868864001423 iron binding site [ion binding]; other site 868864001424 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 868864001425 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 868864001426 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 868864001427 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 868864001428 dimer interface [polypeptide binding]; other site 868864001429 [2Fe-2S] cluster binding site [ion binding]; other site 868864001430 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 868864001431 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 868864001432 SLBB domain; Region: SLBB; pfam10531 868864001433 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 868864001434 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 868864001435 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 868864001436 Thioredoxin-like [2Fe-2S] ferredoxin; Region: 2Fe-2S_thioredx; pfam01257 868864001437 Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner; Region: homeodomain; cd00086 868864001438 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 868864001439 putative dimer interface [polypeptide binding]; other site 868864001440 [2Fe-2S] cluster binding site [ion binding]; other site 868864001441 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 868864001442 ACS interaction site; other site 868864001443 CODH interaction site; other site 868864001444 cubane metal cluster (B-cluster) [ion binding]; other site 868864001445 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 868864001446 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 868864001447 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 868864001448 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 868864001449 anion transporter; Region: dass; TIGR00785 868864001450 transmembrane helices; other site 868864001451 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 868864001452 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 868864001453 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 868864001454 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 868864001455 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 868864001456 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 868864001457 HflX GTPase family; Region: HflX; cd01878 868864001458 G1 box; other site 868864001459 GTP/Mg2+ binding site [chemical binding]; other site 868864001460 Switch I region; other site 868864001461 G2 box; other site 868864001462 G3 box; other site 868864001463 Switch II region; other site 868864001464 G4 box; other site 868864001465 G5 box; other site 868864001466 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 868864001467 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 868864001468 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 868864001469 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 868864001470 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 868864001471 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 868864001472 N-acetyl-D-glucosamine binding site [chemical binding]; other site 868864001473 catalytic residue [active] 868864001474 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 868864001475 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 868864001476 tandem repeat interface [polypeptide binding]; other site 868864001477 oligomer interface [polypeptide binding]; other site 868864001478 active site residues [active] 868864001479 ribonuclease HIII; Provisional; Region: PRK00996 868864001480 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 868864001481 Bacterial type 2 ribonuclease, HII and HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 868864001482 RNA/DNA hybrid binding site [nucleotide binding]; other site 868864001483 active site 868864001484 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 868864001485 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 868864001486 Family of unknown function (DUF490); Region: DUF490; pfam04357 868864001487 TPR repeat; Region: TPR_11; pfam13414 868864001488 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 868864001489 binding surface 868864001490 TPR motif; other site 868864001491 Tetratricopeptide repeat; Region: TPR_12; pfam13424 868864001492 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 868864001493 nucleotide binding site/active site [active] 868864001494 HIT family signature motif; other site 868864001495 catalytic residue [active] 868864001496 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 868864001497 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 868864001498 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 868864001499 CoA-binding site [chemical binding]; other site 868864001500 ATP-binding [chemical binding]; other site 868864001501 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 868864001502 putative active site [active] 868864001503 metal binding site [ion binding]; metal-binding site 868864001504 homodimer binding site [polypeptide binding]; other site 868864001505 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 868864001506 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 868864001507 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 868864001508 homodimer interface [polypeptide binding]; other site 868864001509 NADP binding site [chemical binding]; other site 868864001510 substrate binding site [chemical binding]; other site 868864001511 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 868864001512 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 868864001513 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 868864001514 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 868864001515 RNA binding surface [nucleotide binding]; other site 868864001516 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 868864001517 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 868864001518 acyl-activating enzyme (AAE) consensus motif; other site 868864001519 putative AMP binding site [chemical binding]; other site 868864001520 putative active site [active] 868864001521 putative CoA binding site [chemical binding]; other site 868864001522 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 868864001523 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 868864001524 Diaminopimelate epimerase; Region: DAP_epimerase; cl19724 868864001525 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 868864001526 Fe-S cluster binding site [ion binding]; other site 868864001527 active site 868864001528 Predicted permeases [General function prediction only]; Region: COG0701 868864001529 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 868864001530 Cysteine-rich domain; Region: CCG; pfam02754 868864001531 Cysteine-rich domain; Region: CCG; pfam02754 868864001532 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 868864001533 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 868864001534 catalytic loop [active] 868864001535 iron binding site [ion binding]; other site 868864001536 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 868864001537 L-aspartate oxidase; Provisional; Region: PRK06175 868864001538 succinate dehydrogenase or fumarate reductase, flavoprotein subunitGram-negative/mitochondrial subgroup; Region: sdhA_frdA_Gneg; TIGR01812 868864001539 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 868864001540 L-aspartate oxidase; Provisional; Region: PRK06175 868864001541 succinate dehydrogenase or fumarate reductase, flavoprotein subunitGram-negative/mitochondrial subgroup; Region: sdhA_frdA_Gneg; TIGR01812 868864001542 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 868864001543 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 868864001544 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 868864001545 catalytic loop [active] 868864001546 iron binding site [ion binding]; other site 868864001547 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 868864001548 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 868864001549 Cysteine-rich domain; Region: CCG; pfam02754 868864001550 Cysteine-rich domain; Region: CCG; pfam02754 868864001551 Acylphosphatase; Region: Acylphosphatase; pfam00708 868864001552 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 868864001553 HypF finger; Region: zf-HYPF; pfam07503 868864001554 HypF finger; Region: zf-HYPF; pfam07503 868864001555 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 868864001556 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 868864001557 coenzyme F420 hydrogenase, subunit alpha; Region: frhA; TIGR03295 868864001558 coenzyme F420 hydrogenase, subunit gamma; Region: FrhG; TIGR03294 868864001559 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 868864001560 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 868864001561 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 868864001562 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 868864001563 dimerization interface [polypeptide binding]; other site 868864001564 putative DNA binding site [nucleotide binding]; other site 868864001565 putative Zn2+ binding site [ion binding]; other site 868864001566 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 868864001567 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 868864001568 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 868864001569 NiFe/NiFeSe hydrogenase small subunit C-terminal; Region: NiFe_hyd_SSU_C; pfam14720 868864001570 hydrogenase 2 large subunit; Provisional; Region: PRK10467 868864001571 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 868864001572 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 868864001573 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 868864001574 putative substrate-binding site; other site 868864001575 nickel binding site [ion binding]; other site 868864001576 HupF/HypC family; Region: HupF_HypC; pfam01455 868864001577 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 868864001578 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 868864001579 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 868864001580 S-adenosylmethionine binding site [chemical binding]; other site 868864001581 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 868864001582 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 868864001583 G4 box; other site 868864001584 G5 box; other site 868864001585 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 868864001586 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 868864001587 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 868864001588 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; pfam03544 868864001589 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 868864001590 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 868864001591 active site 868864001592 catalytic residues [active] 868864001593 metal binding site [ion binding]; metal-binding site 868864001594 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 868864001595 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 868864001596 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 868864001597 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 868864001598 active site 868864001599 HIGH motif; other site 868864001600 KMSKS motif; other site 868864001601 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 868864001602 tRNA binding surface [nucleotide binding]; other site 868864001603 anticodon binding site; other site 868864001604 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 868864001605 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 868864001606 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 868864001607 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 868864001608 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 868864001609 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 868864001610 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 868864001611 dimerization interface [polypeptide binding]; other site 868864001612 putative DNA binding site [nucleotide binding]; other site 868864001613 putative Zn2+ binding site [ion binding]; other site 868864001614 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 868864001615 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 868864001616 Pyrroline-5-carboxylate reductase dimerization; Region: P5CR_dimer; pfam14748 868864001617 Cupin domain; Region: Cupin_2; pfam07883 868864001618 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 868864001619 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 868864001620 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 868864001621 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 868864001622 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 868864001623 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 868864001624 homodimer interface [polypeptide binding]; other site 868864001625 active site 868864001626 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 868864001627 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 868864001628 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 868864001629 catalytic triad [active] 868864001630 metal binding site [ion binding]; metal-binding site 868864001631 conserved cis-peptide bond; other site 868864001632 cell division protein FtsZ; Validated; Region: PRK09330 868864001633 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 868864001634 nucleotide binding site [chemical binding]; other site 868864001635 SulA interaction site; other site 868864001636 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 868864001637 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 868864001638 DNA binding residues [nucleotide binding] 868864001639 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 868864001640 catalytic residues [active] 868864001641 catalytic nucleophile [active] 868864001642 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 868864001643 Outer membrane efflux protein; Region: OEP; pfam02321 868864001644 Outer membrane efflux protein; Region: OEP; pfam02321 868864001645 hypothetical protein; Provisional; Region: PRK04334 868864001646 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 868864001647 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 868864001648 Pyrroline-5-carboxylate reductase dimerization; Region: P5CR_dimer; pfam14748 868864001649 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 868864001650 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 868864001651 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09679 868864001652 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 868864001653 metal binding site [ion binding]; metal-binding site 868864001654 active site 868864001655 I-site; other site 868864001656 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 868864001657 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 868864001658 Baseplate J-like protein; Region: Baseplate_J; cl01294 868864001659 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 868864001660 Helix-turn-helix domain; Region: HTH_28; pfam13518 868864001661 Winged helix-turn helix; Region: HTH_29; pfam13551 868864001662 Homeodomain-like domain; Region: HTH_32; pfam13565 868864001663 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 868864001664 Integrase core domain; Region: rve; pfam00665 868864001665 Integrase core domain; Region: rve_3; pfam13683 868864001666 reverse gyrase; Provisional; Region: PRK14701 868864001667 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 868864001668 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 868864001669 Phosphate-selective porin O and P; Region: Porin_O_P; cl19535 868864001670 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 868864001671 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 868864001672 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cd00020 868864001673 protein binding surface [polypeptide binding]; other site 868864001674 HEAT repeats; Region: HEAT_2; pfam13646 868864001675 HEAT repeats; Region: HEAT_2; pfam13646 868864001676 HEAT-like repeat; Region: HEAT_EZ; pfam13513 868864001677 Transcriptional regulator [Transcription]; Region: LysR; COG0583 868864001678 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 868864001679 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 868864001680 dimerization interface [polypeptide binding]; other site 868864001681 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 868864001682 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 868864001683 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 868864001684 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 868864001685 metal binding site [ion binding]; metal-binding site 868864001686 active site 868864001687 I-site; other site 868864001688 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 868864001689 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 868864001690 active site 868864001691 Zn binding site [ion binding]; other site 868864001692 ribonuclease R; Region: RNase_R; TIGR02063 868864001693 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 868864001694 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 868864001695 RNB domain; Region: RNB; pfam00773 868864001696 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 868864001697 RNA binding site [nucleotide binding]; other site 868864001698 Transposase; Region: DEDD_Tnp_IS110; pfam01548 868864001699 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 868864001700 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 868864001701 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 868864001702 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 868864001703 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 868864001704 thiamine phosphate binding site [chemical binding]; other site 868864001705 active site 868864001706 pyrophosphate binding site [ion binding]; other site 868864001707 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl19158 868864001708 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 868864001709 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 868864001710 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 868864001711 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 868864001712 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 868864001713 Walker A/P-loop; other site 868864001714 ATP binding site [chemical binding]; other site 868864001715 Q-loop/lid; other site 868864001716 ABC transporter signature motif; other site 868864001717 Walker B; other site 868864001718 D-loop; other site 868864001719 H-loop/switch region; other site 868864001720 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 868864001721 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 868864001722 Predicted transcriptional regulators [Transcription]; Region: COG1378 868864001723 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 868864001724 dimerization interface [polypeptide binding]; other site 868864001725 putative Zn2+ binding site [ion binding]; other site 868864001726 putative DNA binding site [nucleotide binding]; other site 868864001727 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 868864001728 putative active site [active] 868864001729 Helix-turn-helix domain; Region: HTH_28; pfam13518 868864001730 Winged helix-turn helix; Region: HTH_29; pfam13551 868864001731 Homeodomain-like domain; Region: HTH_32; pfam13565 868864001732 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 868864001733 Integrase core domain; Region: rve; pfam00665 868864001734 Integrase core domain; Region: rve_3; pfam13683 868864001735 8-amino-7-oxononanoate synthase; Region: bioF; TIGR00858 868864001736 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 868864001737 substrate-cofactor binding pocket; other site 868864001738 pyridoxal 5'-phosphate binding site [chemical binding]; other site 868864001739 catalytic residue [active] 868864001740 UPF0126 domain; Region: UPF0126; pfam03458 868864001741 Predicted membrane protein [Function unknown]; Region: COG2860 868864001742 UPF0126 domain; Region: UPF0126; pfam03458 868864001743 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 868864001744 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 868864001745 active site 868864001746 phosphorylation site [posttranslational modification] 868864001747 intermolecular recognition site; other site 868864001748 dimerization interface [polypeptide binding]; other site 868864001749 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 868864001750 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 868864001751 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 868864001752 Walker A motif; other site 868864001753 ATP binding site [chemical binding]; other site 868864001754 DNA polymerase III subunit delta'; Validated; Region: PRK08485 868864001755 Walker B motif; other site 868864001756 arginine finger; other site 868864001757 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 868864001758 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 868864001759 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 868864001760 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 868864001761 active site 868864001762 FMN binding site [chemical binding]; other site 868864001763 substrate binding site [chemical binding]; other site 868864001764 3Fe-4S cluster binding site [ion binding]; other site 868864001765 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 868864001766 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 868864001767 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 868864001768 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 868864001769 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 868864001770 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 868864001771 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 868864001772 putative active site [active] 868864001773 Domain of unknown function (DUF3510); Region: DUF3510; pfam12022 868864001774 Archaeal-type gltB domain. This domain shares sequence similarity with a region of unknown function found in the large subunit of glutamate synthase, which is encoded by gltB and found in most bacteria and eukaryotes. It is predicted to be homologous to...; Region: arch_gltB; cd00981 868864001775 putative subunit interface; other site 868864001776 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 868864001777 pyridoxal 5'-phosphate binding site [chemical binding]; other site 868864001778 catalytic residue [active] 868864001779 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 868864001780 nucleotidyl binding site; other site 868864001781 metal binding site [ion binding]; metal-binding site 868864001782 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 868864001783 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 868864001784 Clp amino terminal domain; Region: Clp_N; pfam02861 868864001785 Clp amino terminal domain; Region: Clp_N; pfam02861 868864001786 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 868864001787 Walker A motif; other site 868864001788 ATP binding site [chemical binding]; other site 868864001789 Walker B motif; other site 868864001790 arginine finger; other site 868864001791 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; cl19245 868864001792 UvrB/uvrC motif; Region: UVR; pfam02151 868864001793 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 868864001794 Walker A motif; other site 868864001795 ATP binding site [chemical binding]; other site 868864001796 Walker B motif; other site 868864001797 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 868864001798 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 868864001799 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 868864001800 DNA binding residues [nucleotide binding] 868864001801 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 868864001802 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 868864001803 NAD(P) binding site [chemical binding]; other site 868864001804 active site 868864001805 3-dehydroquinate synthase; Provisional; Region: PRK02290 868864001806 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 868864001807 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 868864001808 catalytic residue [active] 868864001809 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 868864001810 active site 2 [active] 868864001811 active site 1 [active] 868864001812 hypothetical protein; Provisional; Region: PRK08609 868864001813 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 868864001814 active site 868864001815 primer binding site [nucleotide binding]; other site 868864001816 NTP binding site [chemical binding]; other site 868864001817 metal binding triad [ion binding]; metal-binding site 868864001818 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 868864001819 active site 868864001820 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 868864001821 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 868864001822 FeS/SAM binding site; other site 868864001823 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 868864001824 CHD5-like protein; Region: CHD5; pfam04420 868864001825 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 868864001826 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 868864001827 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 868864001828 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 868864001829 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 868864001830 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 868864001831 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 868864001832 NlpC/P60 family; Region: NLPC_P60; pfam00877 868864001833 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 868864001834 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 868864001835 PDZ domain of trypsin-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 868864001836 protein binding site [polypeptide binding]; other site 868864001837 PDZ domain of trypsin-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 868864001838 protein binding site [polypeptide binding]; other site 868864001839 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 868864001840 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 868864001841 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 868864001842 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 868864001843 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 868864001844 DNA binding residues [nucleotide binding] 868864001845 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 868864001846 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 868864001847 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 868864001848 ligand binding site [chemical binding]; other site 868864001849 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 868864001850 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 868864001851 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 868864001852 ligand binding site [chemical binding]; other site 868864001853 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 868864001854 FAD binding domain; Region: FAD_binding_4; pfam01565 868864001855 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 868864001856 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 868864001857 Helix-turn-helix domain; Region: HTH_28; pfam13518 868864001858 Winged helix-turn helix; Region: HTH_29; pfam13551 868864001859 Homeodomain-like domain; Region: HTH_32; pfam13565 868864001860 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 868864001861 Integrase core domain; Region: rve; pfam00665 868864001862 Integrase core domain; Region: rve_3; pfam13683 868864001863 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; cd00384 868864001864 dimer interface [polypeptide binding]; other site 868864001865 active site 868864001866 Schiff base residues; other site 868864001867 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 868864001868 active site 868864001869 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 868864001870 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; cd00494 868864001871 domain interfaces; other site 868864001872 active site 868864001873 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 868864001874 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 868864001875 tRNA; other site 868864001876 putative tRNA binding site [nucleotide binding]; other site 868864001877 putative NADP binding site [chemical binding]; other site 868864001878 Glutamyl-tRNAGlu reductase, dimerization domain; Region: GlutR_dimer; pfam00745 868864001879 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 868864001880 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 868864001881 active site 868864001882 catalytic residue [active] 868864001883 dimer interface [polypeptide binding]; other site 868864001884 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 868864001885 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 868864001886 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 868864001887 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 868864001888 Walker A motif; other site 868864001889 ATP binding site [chemical binding]; other site 868864001890 Walker B motif; other site 868864001891 Predicted transcriptional regulators [Transcription]; Region: COG1318 868864001892 probable regulatory domain; Region: near_KaiC_dom; TIGR03879 868864001893 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 868864001894 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 868864001895 dimer interface [polypeptide binding]; other site 868864001896 active site 868864001897 ribonuclease III; Reviewed; Region: rnc; PRK00102 868864001898 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 868864001899 dimerization interface [polypeptide binding]; other site 868864001900 active site 868864001901 metal binding site [ion binding]; metal-binding site 868864001902 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 868864001903 dsRNA binding site [nucleotide binding]; other site 868864001904 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 868864001905 active site 868864001906 dimer interface [polypeptide binding]; other site 868864001907 reticulocyte binding/rhoptry protein; Region: 235kDa-fam; TIGR01612 868864001908 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 868864001909 active site 868864001910 phosphorylation site [posttranslational modification] 868864001911 intermolecular recognition site; other site 868864001912 dimerization interface [polypeptide binding]; other site 868864001913 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 868864001914 homotrimer interaction site [polypeptide binding]; other site 868864001915 zinc binding site [ion binding]; other site 868864001916 CDP-binding sites; other site 868864001917 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 868864001918 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 868864001919 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 868864001920 active site 868864001921 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 868864001922 Ion channel; Region: Ion_trans_2; pfam07885 868864001923 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 868864001924 TrkA-N domain; Region: TrkA_N; pfam02254 868864001925 TrkA-C domain; Region: TrkA_C; pfam02080 868864001926 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 868864001927 Probable transposase; Region: OrfB_IS605; pfam01385 868864001928 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 868864001929 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 868864001930 FlhB HrpN YscU SpaS Family; Region: Bac_export_2; cl19167 868864001931 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 868864001932 metal binding site [ion binding]; metal-binding site 868864001933 active site 868864001934 I-site; other site 868864001935 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 868864001936 tRNA 2-selenouridine synthase; Region: tRNA_sel_U_synt; TIGR03167 868864001937 active site residue [active] 868864001938 AAA domain; Region: AAA_17; pfam13207 868864001939 Methyltransferase domain; Region: Methyltransf_31; pfam13847 868864001940 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 868864001941 S-adenosylmethionine binding site [chemical binding]; other site 868864001942 NurA nuclease; Region: NurA; smart00933 868864001943 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 868864001944 Tetrahydrodipicolinate N-succinyltransferase N-terminal; Region: THDPS_N_2; pfam14805 868864001945 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 868864001946 trimer interface [polypeptide binding]; other site 868864001947 active site 868864001948 substrate binding site [chemical binding]; other site 868864001949 CoA binding site [chemical binding]; other site 868864001950 phosphoglyceromutase; Provisional; Region: PRK05434 868864001951 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 868864001952 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 868864001953 dimerization interface 3.5A [polypeptide binding]; other site 868864001954 active site 868864001955 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 868864001956 [Protein-PII] uridylyltransferase; Region: UTase_glnD; TIGR01693 868864001957 metal binding triad; other site 868864001958 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 868864001959 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 868864001960 Zn2+ binding site [ion binding]; other site 868864001961 Mg2+ binding site [ion binding]; other site 868864001962 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 868864001963 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 868864001964 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 868864001965 PLD-like domain; Region: PLDc_2; pfam13091 868864001966 putative active site [active] 868864001967 catalytic site [active] 868864001968 Preprotein translocase SecG subunit; Region: SecG; pfam03840 868864001969 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 868864001970 substrate binding site [chemical binding]; other site 868864001971 dimer interface [polypeptide binding]; other site 868864001972 catalytic triad [active] 868864001973 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 868864001974 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 868864001975 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 868864001976 Walker A motif; other site 868864001977 ATP binding site [chemical binding]; other site 868864001978 Walker B motif; other site 868864001979 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 868864001980 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 868864001981 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 868864001982 Zn2+ binding site [ion binding]; other site 868864001983 Mg2+ binding site [ion binding]; other site 868864001984 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 868864001985 active site 868864001986 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 868864001987 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 868864001988 putative dimer interface [polypeptide binding]; other site 868864001989 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 868864001990 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 868864001991 Walker A/P-loop; other site 868864001992 ATP binding site [chemical binding]; other site 868864001993 Q-loop/lid; other site 868864001994 ABC transporter signature motif; other site 868864001995 Walker B; other site 868864001996 D-loop; other site 868864001997 H-loop/switch region; other site 868864001998 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 868864001999 Desulfoferrodoxin; Region: Desulfoferrodox; pfam01880 868864002000 non-heme iron binding site [ion binding]; other site 868864002001 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 868864002002 DNA methylase; Region: N6_N4_Mtase; pfam01555 868864002003 DEAD-like helicases superfamily; Region: DEXDc; smart00487 868864002004 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 868864002005 ATP binding site [chemical binding]; other site 868864002006 putative Mg++ binding site [ion binding]; other site 868864002007 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 868864002008 Transposase, Mutator family; Region: Transposase_mut; cl19537 868864002009 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 868864002010 Lumazine binding domain; Region: Lum_binding; pfam00677 868864002011 Lumazine binding domain; Region: Lum_binding; pfam00677 868864002012 Transposase; Region: DEDD_Tnp_IS110; pfam01548 868864002013 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 868864002014 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 868864002015 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 868864002016 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl19483 868864002017 UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain; Region: UDPG_MGDP_dh_N; pfam03721 868864002018 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 868864002019 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 868864002020 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 868864002021 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 868864002022 RibD C-terminal domain; Region: RibD_C; cl17279 868864002023 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 868864002024 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 868864002025 dimer interface [polypeptide binding]; other site 868864002026 conserved gate region; other site 868864002027 putative PBP binding loops; other site 868864002028 ABC-ATPase subunit interface; other site 868864002029 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 868864002030 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 868864002031 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 868864002032 dimer interface [polypeptide binding]; other site 868864002033 conserved gate region; other site 868864002034 putative PBP binding loops; other site 868864002035 ABC-ATPase subunit interface; other site 868864002036 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 868864002037 Mg++ binding site [ion binding]; other site 868864002038 putative catalytic motif [active] 868864002039 putative substrate binding site [chemical binding]; other site 868864002040 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 868864002041 dimerization interface [polypeptide binding]; other site 868864002042 putative DNA binding site [nucleotide binding]; other site 868864002043 putative Zn2+ binding site [ion binding]; other site 868864002044 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 868864002045 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 868864002046 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 868864002047 trimer interface [polypeptide binding]; other site 868864002048 active site 868864002049 substrate binding site [chemical binding]; other site 868864002050 CoA binding site [chemical binding]; other site 868864002051 Sporulation related domain; Region: SPOR; pfam05036 868864002052 ketol-acid reductoisomerase; Provisional; Region: PRK05479 868864002053 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 868864002054 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 868864002055 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 868864002056 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 868864002057 putative valine binding site [chemical binding]; other site 868864002058 dimer interface [polypeptide binding]; other site 868864002059 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 868864002060 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 868864002061 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 868864002062 PYR/PP interface [polypeptide binding]; other site 868864002063 dimer interface [polypeptide binding]; other site 868864002064 TPP binding site [chemical binding]; other site 868864002065 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 868864002066 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 868864002067 TPP-binding site [chemical binding]; other site 868864002068 dimer interface [polypeptide binding]; other site 868864002069 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 868864002070 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 868864002071 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 868864002072 KpsF/GutQ family protein; Region: kpsF; TIGR00393 868864002073 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 868864002074 putative active site [active] 868864002075 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 868864002076 Peptidase family M48; Region: Peptidase_M48; pfam01435 868864002077 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 868864002078 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 868864002079 Glutamate-ammonia ligase adenylyltransferase; Region: GlnE; pfam03710 868864002080 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 868864002081 metal binding triad; other site 868864002082 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 868864002083 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 868864002084 metal binding triad; other site 868864002085 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 868864002086 active site 868864002087 substrate binding site [chemical binding]; other site 868864002088 ATP binding site [chemical binding]; other site 868864002089 Helix-turn-helix domain; Region: HTH_28; pfam13518 868864002090 Winged helix-turn helix; Region: HTH_29; pfam13551 868864002091 Homeodomain-like domain; Region: HTH_32; pfam13565 868864002092 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 868864002093 Integrase core domain; Region: rve; pfam00665 868864002094 Integrase core domain; Region: rve_3; pfam13683 868864002095 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 868864002096 Ribonuclease P; Region: Ribonuclease_P; pfam00825 868864002097 Haemolytic domain; Region: Haemolytic; pfam01809 868864002098 membrane protein insertase; Provisional; Region: PRK01318 868864002099 YidC periplasmic domain; Region: YidC_periplas; pfam14849 868864002100 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 868864002101 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 868864002102 Domain of unknown function DUF21; Region: DUF21; pfam01595 868864002103 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 868864002104 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 868864002105 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 868864002106 Domain of unknown function DUF21; Region: DUF21; pfam01595 868864002107 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 868864002108 Transporter associated domain; Region: CorC_HlyC; smart01091 868864002109 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 868864002110 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 868864002111 ATP-grasp domain; Region: ATP-grasp; pfam02222 868864002112 Predicted permeases [General function prediction only]; Region: COG0679 868864002113 selenocysteine-specific elongation factor SelB; Region: selB; TIGR00475 868864002114 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 868864002115 G1 box; other site 868864002116 putative GEF interaction site [polypeptide binding]; other site 868864002117 GTP/Mg2+ binding site [chemical binding]; other site 868864002118 Switch I region; other site 868864002119 G2 box; other site 868864002120 G3 box; other site 868864002121 Switch II region; other site 868864002122 G4 box; other site 868864002123 G5 box; other site 868864002124 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 868864002125 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 868864002126 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 868864002127 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 868864002128 phosphodiesterase; Provisional; Region: PRK12704 868864002129 KH domain; Region: KH_1; pfam00013 868864002130 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 868864002131 Zn2+ binding site [ion binding]; other site 868864002132 Mg2+ binding site [ion binding]; other site 868864002133 ZPR1 zinc-finger domain; Region: zf-ZPR1; cl19251 868864002134 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 868864002135 Cell division protein ZapA; Region: ZapA; pfam05164 868864002136 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 868864002137 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 868864002138 putative tRNA-binding site [nucleotide binding]; other site 868864002139 B3/4 domain; Region: B3_4; pfam03483 868864002140 tRNA synthetase B5 domain; Region: B5; smart00874 868864002141 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 868864002142 dimer interface [polypeptide binding]; other site 868864002143 motif 1; other site 868864002144 motif 3; other site 868864002145 motif 2; other site 868864002146 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 868864002147 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 868864002148 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 868864002149 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 868864002150 dimer interface [polypeptide binding]; other site 868864002151 motif 1; other site 868864002152 active site 868864002153 motif 2; other site 868864002154 motif 3; other site 868864002155 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 868864002156 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 868864002157 Probable transposase; Region: OrfB_IS605; pfam01385 868864002158 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 868864002159 Transposase IS200 like; Region: Y1_Tnp; pfam01797 868864002160 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 868864002161 TrkA-N domain; Region: TrkA_N; pfam02254 868864002162 TrkA-C domain; Region: TrkA_C; pfam02080 868864002163 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 868864002164 Ligand Binding Site [chemical binding]; other site 868864002165 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 868864002166 Uncharacterized Fe-S oxidoreductase [Energy production and conversion]; Region: COG1031 868864002167 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 868864002168 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 868864002169 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 868864002170 active site 868864002171 HIGH motif; other site 868864002172 KMSKS motif; other site 868864002173 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 868864002174 tRNA binding surface [nucleotide binding]; other site 868864002175 anticodon binding site; other site 868864002176 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 868864002177 hypothetical protein; Reviewed; Region: PRK00024 868864002178 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl19066 868864002179 helix-hairpin-helix signature motif; other site 868864002180 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 868864002181 MPN+ (JAMM) motif; other site 868864002182 Zinc-binding site [ion binding]; other site 868864002183 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 868864002184 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 868864002185 putative ribose interaction site [chemical binding]; other site 868864002186 putative ADP binding site [chemical binding]; other site 868864002187 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 868864002188 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 868864002189 Ligand Binding Site [chemical binding]; other site 868864002190 TIGR00269 family protein; Region: TIGR00269 868864002191 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 868864002192 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 868864002193 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 868864002194 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 868864002195 intersubunit interface [polypeptide binding]; other site 868864002196 active site 868864002197 Zn2+ binding site [ion binding]; other site 868864002198 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 868864002199 prephenate dehydrogenase; Validated; Region: PRK08507 868864002200 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 868864002201 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; pfam03544 868864002202 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 868864002203 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 868864002204 dimer interface [polypeptide binding]; other site 868864002205 anticodon binding site; other site 868864002206 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 868864002207 homodimer interface [polypeptide binding]; other site 868864002208 motif 1; other site 868864002209 active site 868864002210 motif 2; other site 868864002211 GAD domain; Region: GAD; pfam02938 868864002212 motif 3; other site 868864002213 DPS-like protein, ferritin-like diiron-binding domain; Region: DPSL; cd01052 868864002214 Ferritin-like domain; Region: Ferritin; pfam00210 868864002215 diiron binding motif [ion binding]; other site 868864002216 Zinc ribbon domain; Region: Zn-ribbon_8; pfam09723 868864002217 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 868864002218 Fumarase C-terminus; Region: Fumerase_C; cl00795 868864002219 selenocysteine synthase; Provisional; Region: PRK04311 868864002220 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 868864002221 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 868864002222 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 868864002223 catalytic residue [active] 868864002224 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 868864002225 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 868864002226 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 868864002227 metal binding site [ion binding]; metal-binding site 868864002228 active site 868864002229 I-site; other site 868864002230 Protein of unknown function (DUF342); Region: DUF342; cl19219 868864002231 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 868864002232 rod shape-determining protein MreC; Region: MreC; cl19252 868864002233 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 868864002234 MMPL family; Region: MMPL; cl14618 868864002235 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 868864002236 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; cl19511 868864002237 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 868864002238 HlyD family secretion protein; Region: HlyD_3; pfam13437 868864002239 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 868864002240 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 868864002241 catalytic triad [active] 868864002242 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 868864002243 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 868864002244 homodimer interface [polypeptide binding]; other site 868864002245 NAD binding pocket [chemical binding]; other site 868864002246 ATP binding pocket [chemical binding]; other site 868864002247 Mg binding site [ion binding]; other site 868864002248 active-site loop [active] 868864002249 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_8; cd07586 868864002250 putative active site [active] 868864002251 catalytic triad [active] 868864002252 putative dimer interface [polypeptide binding]; other site 868864002253 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 868864002254 Integral membrane undecaprenol kinase and similar enzymes; Region: UDPK_IM_like; cd14265 868864002255 trimer interface [polypeptide binding]; other site 868864002256 putative active site [active] 868864002257 Zn binding site [ion binding]; other site 868864002258 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 868864002259 7TM-HD extracellular; Region: 7TMR-HDED; pfam07697 868864002260 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 868864002261 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 868864002262 Zn2+ binding site [ion binding]; other site 868864002263 Mg2+ binding site [ion binding]; other site 868864002264 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 868864002265 PhoH-like protein; Region: PhoH; pfam02562 868864002266 chromosome segregation protein; Provisional; Region: PRK01156 868864002267 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 868864002268 Walker A/P-loop; other site 868864002269 ATP binding site [chemical binding]; other site 868864002270 Q-loop/lid; other site 868864002271 Protein of unknown function (DUF342); Region: DUF342; cl19219 868864002272 Protein of unknown function (DUF342); Region: DUF342; cl19219 868864002273 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 868864002274 ABC transporter signature motif; other site 868864002275 Walker B; other site 868864002276 D-loop; other site 868864002277 H-loop/switch region; other site 868864002278 Aquifex aeolicus LeuT and related proteins; solute binding domain; Region: LeuT-like_sbd; cd10333 868864002279 Na2 binding site [ion binding]; other site 868864002280 substrate binding site 1 [chemical binding]; other site 868864002281 Na binding site 1 [ion binding]; other site 868864002282 substrate binding site 2 [chemical binding]; other site 868864002283 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 868864002284 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 868864002285 FeS/SAM binding site; other site 868864002286 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 868864002287 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 868864002288 Surface antigen; Region: Bac_surface_Ag; pfam01103 868864002289 Septum formation initiator; Region: DivIC; cl17659 868864002290 Protein of unknown function (DUF507); Region: DUF507; cl01112 868864002291 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 868864002292 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 868864002293 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 868864002294 binding surface 868864002295 TPR motif; other site 868864002296 excinuclease ABC subunit B; Provisional; Region: PRK05298 868864002297 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 868864002298 ATP binding site [chemical binding]; other site 868864002299 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 868864002300 nucleotide binding region [chemical binding]; other site 868864002301 ATP-binding site [chemical binding]; other site 868864002302 Ultra-violet resistance protein B; Region: UvrB; pfam12344 868864002303 UvrB/uvrC motif; Region: UVR; pfam02151 868864002304 Homeodomain-like domain; Region: HTH_32; pfam13565 868864002305 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 868864002306 Integrase core domain; Region: rve; pfam00665 868864002307 Integrase core domain; Region: rve_3; pfam13683 868864002308 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 868864002309 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 868864002310 DNA binding residues [nucleotide binding] 868864002311 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 868864002312 catalytic residues [active] 868864002313 catalytic nucleophile [active] 868864002314 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 868864002315 Probable transposase; Region: OrfB_IS605; pfam01385 868864002316 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 868864002317 Helix-turn-helix domain; Region: HTH_28; pfam13518 868864002318 Winged helix-turn helix; Region: HTH_29; pfam13551 868864002319 Homeodomain-like domain; Region: HTH_32; pfam13565 868864002320 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 868864002321 Integrase core domain; Region: rve; pfam00665 868864002322 Integrase core domain; Region: rve_3; pfam13683 868864002323 Uncharacterized conserved protein [Function unknown]; Region: COG2835 868864002324 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 868864002325 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 868864002326 FeS/SAM binding site; other site 868864002327 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 868864002328 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 868864002329 FAD binding pocket [chemical binding]; other site 868864002330 FAD binding motif [chemical binding]; other site 868864002331 phosphate binding motif [ion binding]; other site 868864002332 beta-alpha-beta structure motif; other site 868864002333 NAD binding pocket [chemical binding]; other site 868864002334 Iron coordination center [ion binding]; other site 868864002335 putative oxidoreductase; Provisional; Region: PRK12831 868864002336 Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; Region: Fer4_20; pfam14691 868864002337 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 868864002338 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 868864002339 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 868864002340 Probable transposase; Region: OrfB_IS605; pfam01385 868864002341 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 868864002342 translation initiation factor IF-2; Validated; Region: infB; PRK05306 868864002343 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 868864002344 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 868864002345 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 868864002346 G1 box; other site 868864002347 putative GEF interaction site [polypeptide binding]; other site 868864002348 GTP/Mg2+ binding site [chemical binding]; other site 868864002349 Switch I region; other site 868864002350 G2 box; other site 868864002351 G3 box; other site 868864002352 Switch II region; other site 868864002353 G4 box; other site 868864002354 G5 box; other site 868864002355 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 868864002356 Translation-initiation factor 2; Region: IF-2; pfam11987 868864002357 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 868864002358 hypothetical protein; Reviewed; Region: PRK12497 868864002359 Bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 868864002360 RNA/DNA hybrid binding site [nucleotide binding]; other site 868864002361 active site 868864002362 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 868864002363 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 868864002364 OstA-like protein; Region: OstA; cl00844 868864002365 Organic solvent tolerance protein; Region: OstA_C; pfam04453 868864002366 Uncharacterized conserved protein [Function unknown]; Region: COG3937 868864002367 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 868864002368 active site 868864002369 ATP binding site [chemical binding]; other site 868864002370 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 868864002371 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 868864002372 substrate binding site; other site 868864002373 dimer interface; other site 868864002374 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 868864002375 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 868864002376 putative active site [active] 868864002377 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 868864002378 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 868864002379 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 868864002380 active site 868864002381 dihydroorotase; Validated; Region: pyrC; PRK09357 868864002382 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 868864002383 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 868864002384 active site 868864002385 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 868864002386 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 868864002387 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 868864002388 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 868864002389 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 868864002390 histidinol dehydrogenase; Region: hisD; TIGR00069 868864002391 NAD binding site [chemical binding]; other site 868864002392 dimerization interface [polypeptide binding]; other site 868864002393 product binding site; other site 868864002394 substrate binding site [chemical binding]; other site 868864002395 zinc binding site [ion binding]; other site 868864002396 catalytic residues [active] 868864002397 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 868864002398 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 868864002399 active site 868864002400 phosphorylation site [posttranslational modification] 868864002401 intermolecular recognition site; other site 868864002402 dimerization interface [polypeptide binding]; other site 868864002403 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 868864002404 DNA binding site [nucleotide binding] 868864002405 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 868864002406 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 868864002407 active site 868864002408 metal binding site [ion binding]; metal-binding site 868864002409 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 868864002410 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 868864002411 hinge; other site 868864002412 active site 868864002413 Hydrogenase expression/synthesis hypA family; Region: HypA; cl19201 868864002414 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 868864002415 homodimer interface [polypeptide binding]; other site 868864002416 substrate-cofactor binding pocket; other site 868864002417 pyridoxal 5'-phosphate binding site [chemical binding]; other site 868864002418 catalytic residue [active] 868864002419 DNA repair protein RecO; Region: reco; TIGR00613 868864002420 Recombination protein O N terminal; Region: RecO_N; pfam11967 868864002421 Recombination protein O C terminal; Region: RecO_C; pfam02565 868864002422 GTP-binding protein YchF; Reviewed; Region: PRK09601 868864002423 YchF GTPase; Region: YchF; cd01900 868864002424 G1 box; other site 868864002425 GTP/Mg2+ binding site [chemical binding]; other site 868864002426 Switch I region; other site 868864002427 G2 box; other site 868864002428 Switch II region; other site 868864002429 G3 box; other site 868864002430 G4 box; other site 868864002431 G5 box; other site 868864002432 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 868864002433 SurA N-terminal domain; Region: SurA_N_3; cl07813 868864002434 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 868864002435 Predicted membrane protein [Function unknown]; Region: COG2855 868864002436 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 868864002437 catalytic motif [active] 868864002438 Zn binding site [ion binding]; other site 868864002439 UDP-N-acetylmuramate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: MurB; COG0812 868864002440 FAD binding domain; Region: FAD_binding_4; cl19922 868864002441 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 868864002442 CTP synthetase; Validated; Region: pyrG; PRK05380 868864002443 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 868864002444 Catalytic site [active] 868864002445 active site 868864002446 UTP binding site [chemical binding]; other site 868864002447 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 868864002448 active site 868864002449 putative oxyanion hole; other site 868864002450 catalytic triad [active] 868864002451 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 868864002452 Ligand binding site; other site 868864002453 oligomer interface; other site 868864002454 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 868864002455 putative active site [active] 868864002456 catalytic triad [active] 868864002457 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 868864002458 CAAX protease self-immunity; Region: Abi; pfam02517 868864002459 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 868864002460 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 868864002461 trmE is a tRNA modification GTPase; Region: trmE; cd04164 868864002462 G1 box; other site 868864002463 GTP/Mg2+ binding site [chemical binding]; other site 868864002464 Switch I region; other site 868864002465 G2 box; other site 868864002466 Switch II region; other site 868864002467 G3 box; other site 868864002468 G4 box; other site 868864002469 G5 box; other site 868864002470 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 868864002471 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 868864002472 Peptidase family M23; Region: Peptidase_M23; pfam01551 868864002473 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 868864002474 6-carboxyhexanoate--CoA ligase; Region: BioW; cl00625 868864002475 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 868864002476 Mechanosensitive ion channel; Region: MS_channel; pfam00924 868864002477 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 868864002478 putative active site [active] 868864002479 dimerization interface [polypeptide binding]; other site 868864002480 putative tRNAtyr binding site [nucleotide binding]; other site 868864002481 MarC family integral membrane protein; Region: MarC; cl00919 868864002482 4-Hydroxybenzoate polyprenyltransferase; Region: PT_UbiA_COQ2; cd13959 868864002483 putative active site [active] 868864002484 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 868864002485 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 868864002486 active site 868864002487 motif I; other site 868864002488 motif II; other site 868864002489 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 868864002490 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 868864002491 fumarate hydratase; Provisional; Region: PRK06246 868864002492 malate dehydrogenase; Reviewed; Region: PRK06223 868864002493 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 868864002494 NAD(P) binding site [chemical binding]; other site 868864002495 dimer interface [polypeptide binding]; other site 868864002496 tetramer (dimer of dimers) interface [polypeptide binding]; other site 868864002497 substrate binding site [chemical binding]; other site 868864002498 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 868864002499 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 868864002500 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 868864002501 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 868864002502 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl19197 868864002503 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 868864002504 NADH dehydrogenase; Region: NADHdh; cl00469 868864002505 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06589 868864002506 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 868864002507 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 868864002508 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 868864002509 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 868864002510 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 868864002511 FAD binding pocket [chemical binding]; other site 868864002512 FAD binding motif [chemical binding]; other site 868864002513 phosphate binding motif [ion binding]; other site 868864002514 beta-alpha-beta structure motif; other site 868864002515 NAD binding pocket [chemical binding]; other site 868864002516 Iron coordination center [ion binding]; other site 868864002517 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 868864002518 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 868864002519 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 868864002520 active site 868864002521 (T/H)XGH motif; other site 868864002522 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 868864002523 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 868864002524 Helix-turn-helix domain; Region: HTH_28; pfam13518 868864002525 Winged helix-turn helix; Region: HTH_29; pfam13551 868864002526 Homeodomain-like domain; Region: HTH_32; pfam13565 868864002527 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 868864002528 Integrase core domain; Region: rve; pfam00665 868864002529 Integrase core domain; Region: rve_3; pfam13683 868864002530 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 868864002531 SpoVG; Region: SpoVG; cl00915 868864002532 Protein of unknown function DUF104; Region: DUF104; pfam01954 868864002533 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 868864002534 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 868864002535 Probable transposase; Region: OrfB_IS605; pfam01385 868864002536 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 868864002537 Transposase; Region: DEDD_Tnp_IS110; pfam01548 868864002538 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 868864002539 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 868864002540 succinyldiaminopimelate transaminase; Region: DapC; TIGR03537 868864002541 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 868864002542 pyridoxal 5'-phosphate binding site [chemical binding]; other site 868864002543 homodimer interface [polypeptide binding]; other site 868864002544 catalytic residue [active] 868864002545 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 868864002546 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 868864002547 Walker A motif; other site 868864002548 ATP binding site [chemical binding]; other site 868864002549 Walker B motif; other site 868864002550 enolase; Provisional; Region: eno; PRK00077 868864002551 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 868864002552 dimer interface [polypeptide binding]; other site 868864002553 metal binding site [ion binding]; metal-binding site 868864002554 substrate binding pocket [chemical binding]; other site 868864002555 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 868864002556 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 868864002557 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 868864002558 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 868864002559 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 868864002560 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 868864002561 Glycoprotease family; Region: Peptidase_M22; pfam00814 868864002562 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 868864002563 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 868864002564 Coenzyme A binding pocket [chemical binding]; other site 868864002565 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 868864002566 Protein of unknown function (DUF465); Region: DUF465; cl01070 868864002567 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 868864002568 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 868864002569 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 868864002570 inhibitor-cofactor binding pocket; inhibition site 868864002571 pyridoxal 5'-phosphate binding site [chemical binding]; other site 868864002572 catalytic residue [active] 868864002573 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 868864002574 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 868864002575 Walker A/P-loop; other site 868864002576 ATP binding site [chemical binding]; other site 868864002577 Q-loop/lid; other site 868864002578 ABC transporter signature motif; other site 868864002579 Walker B; other site 868864002580 D-loop; other site 868864002581 H-loop/switch region; other site 868864002582 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 868864002583 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 868864002584 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 868864002585 GIY-YIG motif/motif A; other site 868864002586 active site 868864002587 catalytic site [active] 868864002588 putative DNA binding site [nucleotide binding]; other site 868864002589 metal binding site [ion binding]; metal-binding site 868864002590 UvrB/uvrC motif; Region: UVR; pfam02151 868864002591 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 868864002592 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 868864002593 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 868864002594 active site 868864002595 Transposase; Region: DEDD_Tnp_IS110; pfam01548 868864002596 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 868864002597 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 868864002598 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 868864002599 S-adenosylmethionine binding site [chemical binding]; other site 868864002600 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 868864002601 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 868864002602 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 868864002603 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 868864002604 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; pfam03544 868864002605 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 868864002606 S-adenosylmethionine binding site [chemical binding]; other site 868864002607 Thermophilic metalloprotease (M29); Region: Peptidase_M29; cl19596 868864002608 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 868864002609 active site 868864002610 catalytic triad [active] 868864002611 dimer interface [polypeptide binding]; other site 868864002612 methionine sulfoxide reductase A; Provisional; Region: PRK14054 868864002613 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 868864002614 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 868864002615 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 868864002616 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 868864002617 MutS domain III; Region: MutS_III; pfam05192 868864002618 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 868864002619 Walker A/P-loop; other site 868864002620 ATP binding site [chemical binding]; other site 868864002621 Q-loop/lid; other site 868864002622 ABC transporter signature motif; other site 868864002623 Walker B; other site 868864002624 D-loop; other site 868864002625 H-loop/switch region; other site 868864002626 Smr domain; Region: Smr; pfam01713 868864002627 Yqey-like protein; Region: YqeY; pfam09424 868864002628 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 868864002629 Helix-turn-helix domain; Region: HTH_28; pfam13518 868864002630 Winged helix-turn helix; Region: HTH_29; pfam13551 868864002631 Homeodomain-like domain; Region: HTH_32; pfam13565 868864002632 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 868864002633 Integrase core domain; Region: rve; pfam00665 868864002634 Integrase core domain; Region: rve_3; pfam13683 868864002635 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 868864002636 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 868864002637 multifunctional aminopeptidase A; Provisional; Region: PRK00913 868864002638 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 868864002639 interface (dimer of trimers) [polypeptide binding]; other site 868864002640 Substrate-binding/catalytic site; other site 868864002641 Zn-binding sites [ion binding]; other site 868864002642 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 868864002643 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 868864002644 Probable transposase; Region: OrfB_IS605; pfam01385 868864002645 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 868864002646 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 868864002647 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 868864002648 S-adenosylmethionine synthetase; Provisional; Region: PRK04439 868864002649 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 868864002650 putative active site [active] 868864002651 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 868864002652 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 868864002653 active site 868864002654 HIGH motif; other site 868864002655 dimer interface [polypeptide binding]; other site 868864002656 KMSKS motif; other site 868864002657 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 868864002658 RNA binding surface [nucleotide binding]; other site 868864002659 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 868864002660 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 868864002661 Coenzyme A binding pocket [chemical binding]; other site 868864002662 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 868864002663 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 868864002664 FtsX-like permease family; Region: FtsX; pfam02687 868864002665 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 868864002666 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 868864002667 dimer interface [polypeptide binding]; other site 868864002668 putative anticodon binding site; other site 868864002669 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 868864002670 motif 1; other site 868864002671 active site 868864002672 motif 2; other site 868864002673 motif 3; other site 868864002674 Permease; Region: Permease; pfam02405 868864002675 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 868864002676 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 868864002677 Walker A/P-loop; other site 868864002678 ATP binding site [chemical binding]; other site 868864002679 Q-loop/lid; other site 868864002680 ABC transporter signature motif; other site 868864002681 Walker B; other site 868864002682 D-loop; other site 868864002683 H-loop/switch region; other site 868864002684 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 868864002685 mce related protein; Region: MCE; pfam02470 868864002686 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 868864002687 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13142 868864002688 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 868864002689 putative active site [active] 868864002690 oxyanion strand; other site 868864002691 catalytic triad [active] 868864002692 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 868864002693 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 868864002694 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 868864002695 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 868864002696 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 868864002697 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 868864002698 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 868864002699 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 868864002700 putative active site [active] 868864002701 heme pocket [chemical binding]; other site 868864002702 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 868864002703 dimer interface [polypeptide binding]; other site 868864002704 phosphorylation site [posttranslational modification] 868864002705 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 868864002706 ATP binding site [chemical binding]; other site 868864002707 Mg2+ binding site [ion binding]; other site 868864002708 G-X-G motif; other site 868864002709 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 868864002710 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 868864002711 active site 868864002712 phosphorylation site [posttranslational modification] 868864002713 intermolecular recognition site; other site 868864002714 dimerization interface [polypeptide binding]; other site 868864002715 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 868864002716 Walker A motif; other site 868864002717 ATP binding site [chemical binding]; other site 868864002718 Walker B motif; other site 868864002719 arginine finger; other site 868864002720 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 868864002721 Ferredoxin [Energy production and conversion]; Region: COG1146 868864002722 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 868864002723 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 868864002724 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 868864002725 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 868864002726 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 868864002727 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 868864002728 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 868864002729 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cl00399 868864002730 MoaE homodimer interface [polypeptide binding]; other site 868864002731 MoaD interaction [polypeptide binding]; other site 868864002732 active site residues [active] 868864002733 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 868864002734 GTP binding site; other site 868864002735 bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional; Region: moaC; PRK03604 868864002736 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 868864002737 trimer interface [polypeptide binding]; other site 868864002738 dimer interface [polypeptide binding]; other site 868864002739 putative active site [active] 868864002740 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 868864002741 MPT binding site; other site 868864002742 trimer interface [polypeptide binding]; other site 868864002743 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 868864002744 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 868864002745 FeS/SAM binding site; other site 868864002746 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 868864002747 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 868864002748 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 868864002749 dimer interface [polypeptide binding]; other site 868864002750 putative functional site; other site 868864002751 putative MPT binding site; other site 868864002752 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 868864002753 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 868864002754 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional; Region: PRK14494 868864002755 Walker A motif; other site 868864002756 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 868864002757 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 868864002758 Walker A/P-loop; other site 868864002759 ATP binding site [chemical binding]; other site 868864002760 Q-loop/lid; other site 868864002761 ABC transporter signature motif; other site 868864002762 Walker B; other site 868864002763 D-loop; other site 868864002764 H-loop/switch region; other site 868864002765 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 868864002766 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 868864002767 dimer interface [polypeptide binding]; other site 868864002768 conserved gate region; other site 868864002769 putative PBP binding loops; other site 868864002770 ABC-ATPase subunit interface; other site 868864002771 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 868864002772 Transposase; Region: DEDD_Tnp_IS110; pfam01548 868864002773 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 868864002774 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 868864002775 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 868864002776 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 868864002777 ACS interaction site; other site 868864002778 CODH interaction site; other site 868864002779 metal cluster binding site [ion binding]; other site 868864002780 hypothetical protein; Provisional; Region: PRK10410 868864002781 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 868864002782 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 868864002783 ligand binding site [chemical binding]; other site 868864002784 flexible hinge region; other site 868864002785 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 868864002786 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 868864002787 oligomerisation interface [polypeptide binding]; other site 868864002788 mobile loop; other site 868864002789 roof hairpin; other site 868864002790 chaperonin GroEL; Reviewed; Region: groEL; PRK12850 868864002791 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 868864002792 ring oligomerisation interface [polypeptide binding]; other site 868864002793 ATP/Mg binding site [chemical binding]; other site 868864002794 stacking interactions; other site 868864002795 hinge regions; other site 868864002796 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 868864002797 dimer interface [polypeptide binding]; other site 868864002798 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 868864002799 active site 868864002800 glycine-pyridoxal phosphate binding site [chemical binding]; other site 868864002801 folate binding site [chemical binding]; other site 868864002802 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 868864002803 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 868864002804 RNA binding surface [nucleotide binding]; other site 868864002805 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 868864002806 active site 868864002807 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 868864002808 Probable transposase; Region: OrfB_IS605; pfam01385 868864002809 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 868864002810 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 868864002811 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 868864002812 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 868864002813 Probable transposase; Region: OrfB_IS605; pfam01385 868864002814 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 868864002815 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 868864002816 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 868864002817 intersubunit interface [polypeptide binding]; other site 868864002818 active site 868864002819 catalytic residue [active] 868864002820 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 868864002821 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 868864002822 active site 868864002823 nucleotide binding site [chemical binding]; other site 868864002824 HIGH motif; other site 868864002825 KMSKS motif; other site 868864002826 Riboflavin kinase; Region: Flavokinase; smart00904 868864002827 GTPase Era; Reviewed; Region: era; PRK00089 868864002828 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 868864002829 G1 box; other site 868864002830 GTP/Mg2+ binding site [chemical binding]; other site 868864002831 Switch I region; other site 868864002832 G2 box; other site 868864002833 Switch II region; other site 868864002834 G3 box; other site 868864002835 G4 box; other site 868864002836 G5 box; other site 868864002837 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 868864002838 G-X-X-G motif; other site 868864002839 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 868864002840 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 868864002841 RNA binding surface [nucleotide binding]; other site 868864002842 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 868864002843 active site 868864002844 uracil binding [chemical binding]; other site 868864002845 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 868864002846 active site 868864002847 hypothetical protein; Provisional; Region: PRK06361 868864002848 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 868864002849 active site 868864002850 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 868864002851 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 868864002852 Type IV pilin PilA; Region: Pilin_PilA; pfam14245 868864002853 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 868864002854 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 868864002855 nucleotide binding site [chemical binding]; other site 868864002856 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 868864002857 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 868864002858 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 868864002859 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 868864002860 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 868864002861 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 868864002862 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 868864002863 GatB domain; Region: GatB_Yqey; smart00845 868864002864 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; cd00188 868864002865 active site 868864002866 metal binding site [ion binding]; metal-binding site 868864002867 Homeodomain-like domain; Region: HTH_32; pfam13565 868864002868 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 868864002869 Integrase core domain; Region: rve; pfam00665 868864002870 Integrase core domain; Region: rve_3; pfam13683 868864002871 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 868864002872 Probable transposase; Region: OrfB_IS605; pfam01385 868864002873 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 868864002874 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 868864002875 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 868864002876 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 868864002877 dimer interface [polypeptide binding]; other site 868864002878 decamer (pentamer of dimers) interface [polypeptide binding]; other site 868864002879 catalytic triad [active] 868864002880 peroxidatic and resolving cysteines [active] 868864002881 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 868864002882 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 868864002883 RNA binding surface [nucleotide binding]; other site 868864002884 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 868864002885 active site 868864002886 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 868864002887 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 868864002888 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 868864002889 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 868864002890 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 868864002891 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 868864002892 DNA binding residues [nucleotide binding] 868864002893 DNA primase; Validated; Region: dnaG; PRK05667 868864002894 CHC2 zinc finger; Region: zf-CHC2; pfam01807 868864002895 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 868864002896 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 868864002897 active site 868864002898 metal binding site [ion binding]; metal-binding site 868864002899 interdomain interaction site; other site 868864002900 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 868864002901 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 868864002902 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 868864002903 nucleotide binding pocket [chemical binding]; other site 868864002904 K-X-D-G motif; other site 868864002905 catalytic site [active] 868864002906 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 868864002907 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 868864002908 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 868864002909 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 868864002910 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 868864002911 Dimer interface [polypeptide binding]; other site 868864002912 BRCT sequence motif; other site 868864002913 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 868864002914 Outer membrane efflux protein; Region: OEP; pfam02321 868864002915 Outer membrane efflux protein; Region: OEP; pfam02321 868864002916 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 868864002917 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 868864002918 putative substrate translocation pore; other site 868864002919 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 868864002920 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 868864002921 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 868864002922 HlyD family secretion protein; Region: HlyD_3; pfam13437 868864002923 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 868864002924 binding surface 868864002925 TPR motif; other site 868864002926 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 868864002927 binding surface 868864002928 TPR motif; other site 868864002929 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 868864002930 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 868864002931 Probable transposase; Region: OrfB_IS605; pfam01385 868864002932 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 868864002933 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 868864002934 Urea transporter; Region: UT; pfam03253 868864002935 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 868864002936 Peptidase family M23; Region: Peptidase_M23; pfam01551 868864002937 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 868864002938 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme MccE; Region: PLPDE_III_MccE_like; cd06841 868864002939 dimer interface [polypeptide binding]; other site 868864002940 active site 868864002941 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 868864002942 catalytic residues [active] 868864002943 substrate binding site [chemical binding]; other site 868864002944 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 868864002945 ATP-grasp domain; Region: ATP-grasp_4; cl17255 868864002946 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 868864002947 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 868864002948 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 868864002949 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB2; cd01048 868864002950 diiron binding motif [ion binding]; other site 868864002951 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 868864002952 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 868864002953 ATP binding site [chemical binding]; other site 868864002954 Mg2+ binding site [ion binding]; other site 868864002955 G-X-G motif; other site 868864002956 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 868864002957 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 868864002958 active site 868864002959 phosphorylation site [posttranslational modification] 868864002960 intermolecular recognition site; other site 868864002961 dimerization interface [polypeptide binding]; other site 868864002962 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 868864002963 Walker A motif; other site 868864002964 ATP binding site [chemical binding]; other site 868864002965 Walker B motif; other site 868864002966 arginine finger; other site 868864002967 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 868864002968 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 868864002969 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 868864002970 putative RNA binding site [nucleotide binding]; other site 868864002971 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 868864002972 homopentamer interface [polypeptide binding]; other site 868864002973 active site 868864002974 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 868864002975 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 868864002976 FMN binding site [chemical binding]; other site 868864002977 substrate binding site [chemical binding]; other site 868864002978 putative catalytic residue [active] 868864002979 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 868864002980 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 868864002981 dimer interface [polypeptide binding]; other site 868864002982 active site 868864002983 CoA binding pocket [chemical binding]; other site 868864002984 putative phosphate acyltransferase; Provisional; Region: PRK05331 868864002985 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 868864002986 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 868864002987 SurA N-terminal domain; Region: SurA_N_3; cl07813 868864002988 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 868864002989 SurA N-terminal domain; Region: SurA_N; pfam09312 868864002990 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 868864002991 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 868864002992 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 868864002993 FAD binding site [chemical binding]; other site 868864002994 Cis (Z)-Isoprenyl Diphosphate Synthases; Region: Cis_IPPS; cd00475 868864002995 active site 868864002996 dimer interface [polypeptide binding]; other site 868864002997 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 868864002998 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 868864002999 dimerization interface [polypeptide binding]; other site 868864003000 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 868864003001 ATP binding site [chemical binding]; other site 868864003002 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 868864003003 Hydrogenase formation hypA family; Region: HypD; pfam01924 868864003004 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 868864003005 Uncharacterized conserved protein [Function unknown]; Region: COG0062 868864003006 putative carbohydrate kinase; Provisional; Region: PRK10565 868864003007 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 868864003008 putative substrate binding site [chemical binding]; other site 868864003009 putative ATP binding site [chemical binding]; other site 868864003010 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 868864003011 dimerization interface [polypeptide binding]; other site 868864003012 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 868864003013 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 868864003014 dimer interface [polypeptide binding]; other site 868864003015 phosphorylation site [posttranslational modification] 868864003016 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 868864003017 ATP binding site [chemical binding]; other site 868864003018 Mg2+ binding site [ion binding]; other site 868864003019 G-X-G motif; other site 868864003020 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 868864003021 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 868864003022 ABC-ATPase subunit interface; other site 868864003023 dimer interface [polypeptide binding]; other site 868864003024 putative PBP binding regions; other site 868864003025 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 868864003026 PhoU domain; Region: PhoU; pfam01895 868864003027 PhoU domain; Region: PhoU; pfam01895 868864003028 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 868864003029 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 868864003030 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 868864003031 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 868864003032 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 868864003033 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 868864003034 active site 868864003035 HIGH motif; other site 868864003036 KMSKS motif; other site 868864003037 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 868864003038 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 868864003039 G1 box; other site 868864003040 putative GEF interaction site [polypeptide binding]; other site 868864003041 GTP/Mg2+ binding site [chemical binding]; other site 868864003042 Switch I region; other site 868864003043 G2 box; other site 868864003044 G3 box; other site 868864003045 Switch II region; other site 868864003046 G4 box; other site 868864003047 G5 box; other site 868864003048 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 868864003049 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 868864003050 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 868864003051 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 868864003052 HrcA protein C terminal domain; Region: HrcA; pfam01628 868864003053 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 868864003054 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 868864003055 trimer interface [polypeptide binding]; other site 868864003056 putative metal binding site [ion binding]; other site 868864003057 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 868864003058 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 868864003059 substrate binding site [chemical binding]; other site 868864003060 hexamer interface [polypeptide binding]; other site 868864003061 metal binding site [ion binding]; metal-binding site 868864003062 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 868864003063 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 868864003064 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 868864003065 active site 868864003066 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 868864003067 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 868864003068 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 868864003069 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 868864003070 active site 868864003071 hydrophilic channel; other site 868864003072 dimerization interface [polypeptide binding]; other site 868864003073 catalytic residues [active] 868864003074 active site lid [active] 868864003075 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 868864003076 adenylosuccinate lyase; Provisional; Region: PRK07492 868864003077 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 868864003078 tetramer interface [polypeptide binding]; other site 868864003079 active site 868864003080 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 868864003081 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 868864003082 FeS/SAM binding site; other site 868864003083 Ion channel; Region: Ion_trans_2; pfam07885 868864003084 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 868864003085 TrkA-N domain; Region: TrkA_N; pfam02254 868864003086 TrkA-C domain; Region: TrkA_C; pfam02080 868864003087 Endodeoxyribonuclease RusA; Region: RusA; cl01885 868864003088 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 868864003089 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399; cl19827 868864003090 Protein of unknown function (DUF445); Region: DUF445; pfam04286 868864003091 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 868864003092 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 868864003093 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 868864003094 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 868864003095 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 868864003096 Helix-turn-helix domain; Region: HTH_28; pfam13518 868864003097 Winged helix-turn helix; Region: HTH_29; pfam13551 868864003098 Homeodomain-like domain; Region: HTH_32; pfam13565 868864003099 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 868864003100 Integrase core domain; Region: rve; pfam00665 868864003101 Integrase core domain; Region: rve_3; pfam13683 868864003102 glutamine synthetase, type I; Region: GlnA; TIGR00653 868864003103 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 868864003104 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 868864003105 Nitrogen regulatory protein P-II; Region: P-II; smart00938 868864003106 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 868864003107 metal binding site 2 [ion binding]; metal-binding site 868864003108 putative DNA binding helix; other site 868864003109 metal binding site 1 [ion binding]; metal-binding site 868864003110 dimer interface [polypeptide binding]; other site 868864003111 structural Zn2+ binding site [ion binding]; other site 868864003112 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 868864003113 rod shape-determining protein MreC; Region: MreC; cl19252 868864003114 Purine nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pnp; COG0005 868864003115 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 868864003116 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 868864003117 DHH family; Region: DHH; pfam01368 868864003118 DHHA1 domain; Region: DHHA1; pfam02272 868864003119 Ribosome-binding factor A; Region: RBFA; pfam02033 868864003120 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 868864003121 Transposase; Region: DEDD_Tnp_IS110; pfam01548 868864003122 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 868864003123 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 868864003124 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 868864003125 dimer interface [polypeptide binding]; other site 868864003126 active site 868864003127 transcription termination factor Rho; Provisional; Region: rho; PRK09376 868864003128 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 868864003129 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 868864003130 RNA binding site [nucleotide binding]; other site 868864003131 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 868864003132 multimer interface [polypeptide binding]; other site 868864003133 Walker A motif; other site 868864003134 ATP binding site [chemical binding]; other site 868864003135 Walker B motif; other site 868864003136 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 868864003137 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 868864003138 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 868864003139 substrate binding site [chemical binding]; other site 868864003140 active site 868864003141 catalytic residues [active] 868864003142 heterodimer interface [polypeptide binding]; other site 868864003143 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 868864003144 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 868864003145 Thymidylate synthase complementing protein; Region: Thy1; cl03630 868864003146 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 868864003147 cysteine synthase; Region: PLN02565 868864003148 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 868864003149 dimer interface [polypeptide binding]; other site 868864003150 pyridoxal 5'-phosphate binding site [chemical binding]; other site 868864003151 catalytic residue [active] 868864003152 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 868864003153 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 868864003154 heterotetramer interface [polypeptide binding]; other site 868864003155 active site pocket [active] 868864003156 cleavage site 868864003157 Type III pantothenate kinase; Region: Pan_kinase; pfam03309 868864003158 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cl19048 868864003159 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 868864003160 PSP1 C-terminal conserved region; Region: PSP1; cl00770 868864003161 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 868864003162 FeS/SAM binding site; other site 868864003163 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 868864003164 TrkA-C domain; Region: TrkA_C; pfam02080 868864003165 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 868864003166 thymidylate kinase; Validated; Region: tmk; PRK00698 868864003167 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 868864003168 TMP-binding site; other site 868864003169 ATP-binding site [chemical binding]; other site 868864003170 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 868864003171 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 868864003172 Walker A motif; other site 868864003173 ATP binding site [chemical binding]; other site 868864003174 DNA polymerase III subunit delta'; Validated; Region: PRK07132 868864003175 Walker B motif; other site 868864003176 arginine finger; other site 868864003177 Carbonic anhydrase; Region: Pro_CA; pfam00484 868864003178 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 868864003179 active site 868864003180 metal binding site [ion binding]; metal-binding site 868864003181 homotetramer interface [polypeptide binding]; other site 868864003182 DNA topoisomerase I; Validated; Region: PRK06599 868864003183 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 868864003184 active site 868864003185 interdomain interaction site; other site 868864003186 putative metal-binding site [ion binding]; other site 868864003187 nucleotide binding site [chemical binding]; other site 868864003188 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 868864003189 domain I; other site 868864003190 DNA binding groove [nucleotide binding] 868864003191 phosphate binding site [ion binding]; other site 868864003192 domain II; other site 868864003193 domain III; other site 868864003194 nucleotide binding site [chemical binding]; other site 868864003195 catalytic site [active] 868864003196 domain IV; other site 868864003197 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 868864003198 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 868864003199 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 868864003200 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 868864003201 active site 868864003202 metal binding site [ion binding]; metal-binding site 868864003203 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 868864003204 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 868864003205 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 868864003206 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 868864003207 B12 binding site [chemical binding]; other site 868864003208 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 868864003209 cell division protein FtsZ; Region: ftsZ; TIGR00065 868864003210 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 868864003211 nucleotide binding site [chemical binding]; other site 868864003212 SulA interaction site; other site 868864003213 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 868864003214 Cell division protein FtsA; Region: FtsA; smart00842 868864003215 Cell division protein FtsA; Region: FtsA; pfam14450 868864003216 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 868864003217 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 868864003218 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 868864003219 ATP-grasp domain; Region: ATP-grasp_4; cl17255 868864003220 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 868864003221 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 868864003222 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 868864003223 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 868864003224 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 868864003225 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 868864003226 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 868864003227 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 868864003228 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 868864003229 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 868864003230 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 868864003231 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 868864003232 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 868864003233 inhibitor-cofactor binding pocket; inhibition site 868864003234 pyridoxal 5'-phosphate binding site [chemical binding]; other site 868864003235 catalytic residue [active] 868864003236 4Fe-4S binding domain; Region: Fer4_5; pfam12801 868864003237 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 868864003238 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 868864003239 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 868864003240 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 868864003241 Walker A motif; other site 868864003242 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 868864003243 active site 868864003244 dimerization interface [polypeptide binding]; other site 868864003245 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 868864003246 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 868864003247 active site 868864003248 phosphorylation site [posttranslational modification] 868864003249 intermolecular recognition site; other site 868864003250 dimerization interface [polypeptide binding]; other site 868864003251 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 868864003252 DNA binding site [nucleotide binding] 868864003253 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 868864003254 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 868864003255 dimer interface [polypeptide binding]; other site 868864003256 phosphorylation site [posttranslational modification] 868864003257 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 868864003258 ATP binding site [chemical binding]; other site 868864003259 Mg2+ binding site [ion binding]; other site 868864003260 G-X-G motif; other site 868864003261 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 868864003262 Phosphate-starvation-inducible E; Region: PsiE; cl01264 868864003263 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 868864003264 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 868864003265 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 868864003266 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 868864003267 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 868864003268 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 868864003269 purine monophosphate binding site [chemical binding]; other site 868864003270 dimer interface [polypeptide binding]; other site 868864003271 putative catalytic residues [active] 868864003272 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 868864003273 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 868864003274 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 868864003275 active site 868864003276 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 868864003277 dimer interface [polypeptide binding]; other site 868864003278 substrate binding site [chemical binding]; other site 868864003279 catalytic residues [active] 868864003280 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 868864003281 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 868864003282 S-adenosylmethionine binding site [chemical binding]; other site 868864003283 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 868864003284 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 868864003285 active site 868864003286 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 868864003287 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 868864003288 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 868864003289 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 868864003290 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 868864003291 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 868864003292 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 868864003293 ATP binding site [chemical binding]; other site 868864003294 putative Mg++ binding site [ion binding]; other site 868864003295 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 868864003296 nucleotide binding region [chemical binding]; other site 868864003297 ATP-binding site [chemical binding]; other site 868864003298 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 868864003299 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 868864003300 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 868864003301 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 868864003302 dimerization interface [polypeptide binding]; other site 868864003303 putative DNA binding site [nucleotide binding]; other site 868864003304 putative Zn2+ binding site [ion binding]; other site 868864003305 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 868864003306 homotrimer interaction site [polypeptide binding]; other site 868864003307 putative active site [active] 868864003308 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 868864003309 putative SAM binding site [chemical binding]; other site 868864003310 putative homodimer interface [polypeptide binding]; other site 868864003311 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 868864003312 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 868864003313 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 868864003314 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 868864003315 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 868864003316 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 868864003317 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 868864003318 dimer interface [polypeptide binding]; other site 868864003319 ssDNA binding site [nucleotide binding]; other site 868864003320 tetramer (dimer of dimers) interface [polypeptide binding]; other site 868864003321 Ribosomal protein S6; Region: Ribosomal_S6; pfam01250 868864003322 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 868864003323 putative active site [active] 868864003324 catalytic residue [active] 868864003325 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 868864003326 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 868864003327 5S rRNA interface [nucleotide binding]; other site 868864003328 CTC domain interface [polypeptide binding]; other site 868864003329 L16 interface [polypeptide binding]; other site 868864003330 Ribosomal protein TL5, C-terminal domain; Region: Ribosomal_TL5_C; pfam14693 868864003331 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 868864003332 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 868864003333 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 868864003334 MutS domain I; Region: MutS_I; pfam01624 868864003335 MutS domain II; Region: MutS_II; pfam05188 868864003336 MutS domain III; Region: MutS_III; pfam05192 868864003337 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 868864003338 Walker A/P-loop; other site 868864003339 ATP binding site [chemical binding]; other site 868864003340 Q-loop/lid; other site 868864003341 ABC transporter signature motif; other site 868864003342 Walker B; other site 868864003343 D-loop; other site 868864003344 H-loop/switch region; other site 868864003345 Domain of unknown function (DUF329); Region: DUF329; pfam03884 868864003346 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 868864003347 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 868864003348 RNA binding surface [nucleotide binding]; other site 868864003349 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 868864003350 active site 868864003351 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 868864003352 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 868864003353 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 868864003354 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 868864003355 N-acetyl-D-glucosamine binding site [chemical binding]; other site 868864003356 catalytic residue [active] 868864003357 ScpA/B protein; Region: ScpA_ScpB; cl00598 868864003358 FOG: CBS domain [General function prediction only]; Region: COG0517 868864003359 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 868864003360 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 868864003361 metal binding site [ion binding]; metal-binding site 868864003362 active site 868864003363 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 868864003364 nucleotide binding site [chemical binding]; other site 868864003365 polyphosphate kinase; Provisional; Region: PRK05443 868864003366 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 868864003367 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 868864003368 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 868864003369 putative domain interface [polypeptide binding]; other site 868864003370 putative active site [active] 868864003371 catalytic site [active] 868864003372 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 868864003373 putative domain interface [polypeptide binding]; other site 868864003374 putative active site [active] 868864003375 catalytic site [active] 868864003376 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 868864003377 catalytic core [active] 868864003378 Putative integral membrane protein (DUF2391); Region: DUF2391; cl01935 868864003379 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 868864003380 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 868864003381 NAD(P) binding site [chemical binding]; other site 868864003382 homotetramer interface [polypeptide binding]; other site 868864003383 homodimer interface [polypeptide binding]; other site 868864003384 active site 868864003385 acyl carrier protein; Provisional; Region: acpP; PRK00982 868864003386 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 868864003387 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 868864003388 dimerization interface [polypeptide binding]; other site 868864003389 domain crossover interface; other site 868864003390 redox-dependent activation switch; other site 868864003391 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 868864003392 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 868864003393 Probable transposase; Region: OrfB_IS605; pfam01385 868864003394 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 868864003395 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 868864003396 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 868864003397 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 868864003398 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 868864003399 FeS/SAM binding site; other site 868864003400 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 868864003401 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 868864003402 P loop; other site 868864003403 Nucleotide binding site [chemical binding]; other site 868864003404 DTAP/Switch II; other site 868864003405 Switch I; other site 868864003406 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 868864003407 Carbon starvation protein CstA; Region: CstA; pfam02554 868864003408 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 868864003409 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 868864003410 Probable transposase; Region: OrfB_IS605; pfam01385 868864003411 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 868864003412 PilZ domain; Region: PilZ; pfam07238 868864003413 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 868864003414 Bacterial protein of unknown function (DUF885); Region: DUF885; cl19872 868864003415 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 868864003416 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 868864003417 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 868864003418 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 868864003419 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 868864003420 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 868864003421 oligomer interface [polypeptide binding]; other site 868864003422 metal binding site [ion binding]; metal-binding site 868864003423 metal binding site [ion binding]; metal-binding site 868864003424 putative Cl binding site [ion binding]; other site 868864003425 aspartate ring; other site 868864003426 basic sphincter; other site 868864003427 hydrophobic gate; other site 868864003428 periplasmic entrance; other site 868864003429 Uncharacterized protein containing a ferredoxin domain (DUF2148); Region: DUF2148; cl19624 868864003430 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 868864003431 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 868864003432 dimerization interface [polypeptide binding]; other site 868864003433 ATP binding site [chemical binding]; other site 868864003434 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 868864003435 dimerization interface [polypeptide binding]; other site 868864003436 ATP binding site [chemical binding]; other site 868864003437 Bacterial trigger factor protein (TF); Region: Trigger_N; pfam05697 868864003438 trigger factor; Region: tig; TIGR00115 868864003439 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 868864003440 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 868864003441 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 868864003442 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 868864003443 ANP binding site [chemical binding]; other site 868864003444 Substrate Binding Site II [chemical binding]; other site 868864003445 Substrate Binding Site I [chemical binding]; other site 868864003446 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 868864003447 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 868864003448 Ligand Binding Site [chemical binding]; other site 868864003449 TilS substrate C-terminal domain; Region: TilS_C; smart00977 868864003450 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 868864003451 active site 868864003452 FtsH Extracellular; Region: FtsH_ext; pfam06480 868864003453 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 868864003454 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 868864003455 Walker A motif; other site 868864003456 ATP binding site [chemical binding]; other site 868864003457 Walker B motif; other site 868864003458 arginine finger; other site 868864003459 Peptidase family M41; Region: Peptidase_M41; pfam01434 868864003460 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 868864003461 active site 868864003462 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 868864003463 binding surface 868864003464 TPR motif; other site 868864003465 TPR repeat; Region: TPR_11; pfam13414 868864003466 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 868864003467 binding surface 868864003468 TPR motif; other site 868864003469 Tetratricopeptide repeat; Region: TPR_16; pfam13432 868864003470 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 868864003471 TPR repeat; Region: TPR_11; pfam13414 868864003472 binding surface 868864003473 TPR motif; other site 868864003474 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 868864003475 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 868864003476 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 868864003477 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 868864003478 CPxP motif; other site 868864003479 DsrE/DsrF-like family; Region: DrsE; pfam02635 868864003480 Lipopolysaccharide-assembly; Region: LptE; cl01125 868864003481 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 868864003482 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 868864003483 active site 868864003484 HIGH motif; other site 868864003485 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 868864003486 Largest subunit of RNA polymerase (RNAP), N-terminal domain; Region: RNAP_largest_subunit_N; cl19114 868864003487 KMSKS motif; other site 868864003488 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 868864003489 tRNA binding surface [nucleotide binding]; other site 868864003490 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 868864003491 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 868864003492 substrate binding site [chemical binding]; other site 868864003493 ATP binding site [chemical binding]; other site 868864003494 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 868864003495 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 868864003496 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 868864003497 cobalt transport protein CbiM; Validated; Region: PRK06265 868864003498 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 868864003499 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 868864003500 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 868864003501 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 868864003502 Walker A/P-loop; other site 868864003503 ATP binding site [chemical binding]; other site 868864003504 Q-loop/lid; other site 868864003505 ABC transporter signature motif; other site 868864003506 Walker B; other site 868864003507 D-loop; other site 868864003508 H-loop/switch region; other site 868864003509 Bifunctional nuclease; Region: DNase-RNase; pfam02577 868864003510 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 868864003511 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 868864003512 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 868864003513 FeS/SAM binding site; other site 868864003514 TRAM domain; Region: TRAM; pfam01938 868864003515 Glycine zipper; Region: Gly-zipper_Omp; pfam13488 868864003516 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 868864003517 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 868864003518 ligand binding site [chemical binding]; other site 868864003519 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 868864003520 putative catalytic cysteine [active] 868864003521 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 868864003522 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 868864003523 ADP binding site [chemical binding]; other site 868864003524 magnesium binding site [ion binding]; other site 868864003525 putative shikimate binding site; other site 868864003526 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 868864003527 Probable transposase; Region: OrfB_IS605; pfam01385 868864003528 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 868864003529 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 868864003530 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 868864003531 DNA binding residues [nucleotide binding] 868864003532 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 868864003533 catalytic residues [active] 868864003534 catalytic nucleophile [active] 868864003535 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 868864003536 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]; Region: RAD55; COG0467 868864003537 KaiC domain protein, AF_0795 family; Region: thermo_KaiC_2; TIGR03878 868864003538 Walker A motif; other site 868864003539 ATP binding site [chemical binding]; other site 868864003540 Walker B motif; other site 868864003541 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 868864003542 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 868864003543 active site 868864003544 substrate binding site [chemical binding]; other site 868864003545 metal binding site [ion binding]; metal-binding site 868864003546 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 868864003547 putative active site [active] 868864003548 biotin synthase; Region: bioB; TIGR00433 868864003549 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 868864003550 FeS/SAM binding site; other site 868864003551 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 868864003552 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 868864003553 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 868864003554 G1 box; other site 868864003555 GTP/Mg2+ binding site [chemical binding]; other site 868864003556 G2 box; other site 868864003557 Switch I region; other site 868864003558 G3 box; other site 868864003559 Switch II region; other site 868864003560 G4 box; other site 868864003561 G5 box; other site 868864003562 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 868864003563 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 868864003564 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 868864003565 TPP-binding site [chemical binding]; other site 868864003566 putative dimer interface [polypeptide binding]; other site 868864003567 Plasmodium yoelii subtelomeric domain PYST-C2; Region: PYST-C2; TIGR01604 868864003568 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 868864003569 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 868864003570 dimer interface [polypeptide binding]; other site 868864003571 PYR/PP interface [polypeptide binding]; other site 868864003572 TPP binding site [chemical binding]; other site 868864003573 substrate binding site [chemical binding]; other site 868864003574 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 868864003575 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 868864003576 2-oxoacid:acceptor oxidoreductase, gamma subunit, pyruvate/2-ketoisovalerate family; Region: PorC_KorC; TIGR02175 868864003577 recombination protein RecR; Reviewed; Region: recR; PRK00076 868864003578 RecR protein; Region: RecR; pfam02132 868864003579 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 868864003580 putative active site [active] 868864003581 putative metal-binding site [ion binding]; other site 868864003582 tetramer interface [polypeptide binding]; other site 868864003583 hypothetical protein; Validated; Region: PRK00153 868864003584 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 868864003585 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 868864003586 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 868864003587 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 868864003588 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 868864003589 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 868864003590 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 868864003591 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 868864003592 acyl-activating enzyme (AAE) consensus motif; other site 868864003593 AMP binding site [chemical binding]; other site 868864003594 active site 868864003595 CoA binding site [chemical binding]; other site 868864003596 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 868864003597 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 868864003598 acyl-activating enzyme (AAE) consensus motif; other site 868864003599 AMP binding site [chemical binding]; other site 868864003600 active site 868864003601 CoA binding site [chemical binding]; other site 868864003602 Protein of unknown function (DUF904); Region: DUF904; cl11531 868864003603 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 868864003604 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 868864003605 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 868864003606 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 868864003607 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 868864003608 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 868864003609 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 868864003610 Protein export membrane protein; Region: SecD_SecF; pfam02355 868864003611 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 868864003612 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 868864003613 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 868864003614 Active_site [active] 868864003615 Nucleoside diphosphate kinase; Region: NDK; pfam00334 868864003616 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 868864003617 active site 868864003618 multimer interface [polypeptide binding]; other site 868864003619 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 868864003620 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 868864003621 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 868864003622 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 868864003623 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 868864003624 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 868864003625 active site 868864003626 HIGH motif; other site 868864003627 KMSK motif region; other site 868864003628 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 868864003629 tRNA binding surface [nucleotide binding]; other site 868864003630 anticodon binding site; other site 868864003631 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 868864003632 Sporulation related domain; Region: SPOR; pfam05036 868864003633 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 868864003634 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 868864003635 active site 868864003636 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 868864003637 Radical SAM superfamily; Region: Radical_SAM; pfam04055 868864003638 FeS/SAM binding site; other site 868864003639 nickel responsive regulator; Provisional; Region: PRK04460 868864003640 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 868864003641 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 868864003642 hypothetical protein; Validated; Region: PRK00110 868864003643 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 868864003644 N-acetyl-D-glucosamine binding site [chemical binding]; other site 868864003645 catalytic residue [active] 868864003646 LysM domain; Region: LysM; pfam01476 868864003647 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 868864003648 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 868864003649 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 868864003650 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 868864003651 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 868864003652 nucleotide binding site/active site [active] 868864003653 HIT family signature motif; other site 868864003654 catalytic residue [active] 868864003655 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 868864003656 metal binding site [ion binding]; metal-binding site 868864003657 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 868864003658 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 868864003659 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 868864003660 homotetramer interface [polypeptide binding]; other site 868864003661 ligand binding site [chemical binding]; other site 868864003662 catalytic site [active] 868864003663 NAD binding site [chemical binding]; other site 868864003664 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 868864003665 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 868864003666 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 868864003667 trimer interface [polypeptide binding]; other site 868864003668 active site 868864003669 UDP-GlcNAc binding site [chemical binding]; other site 868864003670 lipid binding site [chemical binding]; lipid-binding site 868864003671 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 868864003672 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 868864003673 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 868864003674 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 868864003675 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 868864003676 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 868864003677 Surface antigen; Region: Bac_surface_Ag; pfam01103 868864003678 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 868864003679 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 868864003680 dimer interface [polypeptide binding]; other site 868864003681 phosphorylation site [posttranslational modification] 868864003682 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 868864003683 ATP binding site [chemical binding]; other site 868864003684 Mg2+ binding site [ion binding]; other site 868864003685 G-X-G motif; other site 868864003686 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 868864003687 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 868864003688 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 868864003689 Colicin V production protein; Region: Colicin_V; pfam02674 868864003690 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 868864003691 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 868864003692 dimerization interface [polypeptide binding]; other site 868864003693 active site 868864003694 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 868864003695 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 868864003696 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 868864003697 S-adenosylmethionine binding site [chemical binding]; other site 868864003698 aspartate aminotransferase; Provisional; Region: PRK05764 868864003699 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 868864003700 pyridoxal 5'-phosphate binding site [chemical binding]; other site 868864003701 homodimer interface [polypeptide binding]; other site 868864003702 catalytic residue [active] 868864003703 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 868864003704 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 868864003705 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 868864003706 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 868864003707 S-adenosylmethionine binding site [chemical binding]; other site 868864003708 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 868864003709 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 868864003710 Dihydroneopterin aldolase; Region: FolB; smart00905 868864003711 active site 868864003712 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 868864003713 metal binding site [ion binding]; metal-binding site 868864003714 active site 868864003715 I-site; other site 868864003716 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 868864003717 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 868864003718 Ligand Binding Site [chemical binding]; other site 868864003719 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 868864003720 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 868864003721 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 868864003722 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 868864003723 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 868864003724 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 868864003725 putative acyl-acceptor binding pocket; other site 868864003726 TonB C terminal; Region: TonB_2; pfam13103 868864003727 Helix-turn-helix domain; Region: HTH_28; pfam13518 868864003728 Winged helix-turn helix; Region: HTH_29; pfam13551 868864003729 Homeodomain-like domain; Region: HTH_32; pfam13565 868864003730 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 868864003731 Integrase core domain; Region: rve; pfam00665 868864003732 Integrase core domain; Region: rve_3; pfam13683 868864003733 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 868864003734 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 868864003735 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 868864003736 active site 868864003737 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 868864003738 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 868864003739 Walker A motif; other site 868864003740 ATP binding site [chemical binding]; other site 868864003741 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 868864003742 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 868864003743 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 868864003744 active site 868864003745 HslU subunit interaction site [polypeptide binding]; other site 868864003746 Helix-turn-helix domain; Region: HTH_28; pfam13518 868864003747 Winged helix-turn helix; Region: HTH_29; pfam13551 868864003748 Homeodomain-like domain; Region: HTH_32; pfam13565 868864003749 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 868864003750 Integrase core domain; Region: rve; pfam00665 868864003751 Integrase core domain; Region: rve_3; pfam13683 868864003752 ATP citrate (pro-S)-lyase; Region: PLN02522 868864003753 CoA-ligase; Region: Ligase_CoA; pfam00549 868864003754 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 868864003755 active site 868864003756 oxalacetate binding site [chemical binding]; other site 868864003757 citrylCoA binding site [chemical binding]; other site 868864003758 coenzyme A binding site [chemical binding]; other site 868864003759 catalytic triad [active] 868864003760 ATP citrate (pro-S)-lyase; Region: PLN02235 868864003761 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 868864003762 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cl00198 868864003763 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 868864003764 aconitate hydratase; Validated; Region: PRK07229 868864003765 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 868864003766 substrate binding site [chemical binding]; other site 868864003767 ligand binding site [chemical binding]; other site 868864003768 Bacterial Aconitase-like swivel domain. Aconitase (aconitate hydratase or citrate hydrolyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. Cis-aconitate is formed as an intermediate product during the course...; Region: AcnA_Bact_Swivel; cd01579 868864003769 substrate binding site [chemical binding]; other site 868864003770 Uncharacterized conserved protein [Function unknown]; Region: RtcB; COG1690 868864003771 tRNA-splicing ligase RtcB; Region: RtcB; pfam01139 868864003772 Protein of unknown function (DUF505); Region: DUF505; cl19549 868864003773 Helix-turn-helix domain; Region: HTH_28; pfam13518 868864003774 Winged helix-turn helix; Region: HTH_29; pfam13551 868864003775 Homeodomain-like domain; Region: HTH_32; pfam13565 868864003776 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 868864003777 Integrase core domain; Region: rve; pfam00665 868864003778 Integrase core domain; Region: rve_3; pfam13683 868864003779 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 868864003780 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 868864003781 ATP binding site [chemical binding]; other site 868864003782 Mg2+ binding site [ion binding]; other site 868864003783 G-X-G motif; other site 868864003784 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 868864003785 ATP binding site [chemical binding]; other site 868864003786 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 868864003787 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 868864003788 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 868864003789 Walker A/P-loop; other site 868864003790 ATP binding site [chemical binding]; other site 868864003791 Q-loop/lid; other site 868864003792 ABC transporter signature motif; other site 868864003793 Walker B; other site 868864003794 D-loop; other site 868864003795 H-loop/switch region; other site 868864003796 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 868864003797 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 868864003798 dimer interface [polypeptide binding]; other site 868864003799 conserved gate region; other site 868864003800 putative PBP binding loops; other site 868864003801 ABC-ATPase subunit interface; other site 868864003802 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 868864003803 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 868864003804 dimer interface [polypeptide binding]; other site 868864003805 conserved gate region; other site 868864003806 putative PBP binding loops; other site 868864003807 ABC-ATPase subunit interface; other site 868864003808 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 868864003809 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 868864003810 active site 868864003811 PHP Thumb interface [polypeptide binding]; other site 868864003812 metal binding site [ion binding]; metal-binding site 868864003813 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 868864003814 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 868864003815 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 868864003816 generic binding surface II; other site 868864003817 generic binding surface I; other site 868864003818 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 868864003819 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 868864003820 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 868864003821 active site 868864003822 phosphorylation site [posttranslational modification] 868864003823 intermolecular recognition site; other site 868864003824 dimerization interface [polypeptide binding]; other site 868864003825 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 868864003826 DNA binding site [nucleotide binding] 868864003827 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 868864003828 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 868864003829 dimer interface [polypeptide binding]; other site 868864003830 phosphorylation site [posttranslational modification] 868864003831 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 868864003832 ATP binding site [chemical binding]; other site 868864003833 Mg2+ binding site [ion binding]; other site 868864003834 G-X-G motif; other site 868864003835 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 868864003836 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 868864003837 active site 868864003838 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 868864003839 Outer membrane efflux protein; Region: OEP; pfam02321 868864003840 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 868864003841 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 868864003842 putative membrane fusion protein; Region: TIGR02828 868864003843 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 868864003844 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 868864003845 DEAD-like helicases superfamily; Region: DEXDc; smart00487 868864003846 ATP binding site [chemical binding]; other site 868864003847 Mg++ binding site [ion binding]; other site 868864003848 motif III; other site 868864003849 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 868864003850 nucleotide binding region [chemical binding]; other site 868864003851 ATP-binding site [chemical binding]; other site 868864003852 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 868864003853 DNA-binding site [nucleotide binding]; DNA binding site 868864003854 RNA-binding motif; other site 868864003855 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 868864003856 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 868864003857 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 868864003858 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 868864003859 Homocysteine S-methyltransferase; Region: S-methyl_trans; cl14105 868864003860 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 868864003861 substrate binding pocket [chemical binding]; other site 868864003862 dimer interface [polypeptide binding]; other site 868864003863 inhibitor binding site; inhibition site 868864003864 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 868864003865 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 868864003866 B12 binding site [chemical binding]; other site 868864003867 cobalt ligand [ion binding]; other site 868864003868 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 868864003869 active site 868864003870 Transglycosylase; Region: Transgly; pfam00912 868864003871 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 868864003872 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 868864003873 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 868864003874 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 868864003875 protein-splicing catalytic site; other site 868864003876 thioester formation/cholesterol transfer; other site 868864003877 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 868864003878 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl19058 868864003879 LAGLIDADG-like domain; Region: LAGLIDADG_3; pfam14528 868864003880 Hint (Hedgehog/Intein) domain C-terminal region; Region: HintC; smart00305 868864003881 DNA gyrase subunit A; Validated; Region: PRK05560 868864003882 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 868864003883 CAP-like domain; other site 868864003884 active site 868864003885 primary dimer interface [polypeptide binding]; other site 868864003886 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 868864003887 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 868864003888 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 868864003889 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 868864003890 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 868864003891 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 868864003892 seryl-tRNA synthetase; Provisional; Region: PRK05431 868864003893 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 868864003894 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 868864003895 dimer interface [polypeptide binding]; other site 868864003896 active site 868864003897 motif 1; other site 868864003898 motif 2; other site 868864003899 motif 3; other site 868864003900 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 868864003901 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 868864003902 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 868864003903 PilX N-terminal; Region: PilX_N; pfam14341 868864003904 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 868864003905 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 868864003906 Walker A/P-loop; other site 868864003907 ATP binding site [chemical binding]; other site 868864003908 Q-loop/lid; other site 868864003909 ABC transporter signature motif; other site 868864003910 Walker B; other site 868864003911 D-loop; other site 868864003912 H-loop/switch region; other site 868864003913 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 868864003914 OstA-like protein; Region: OstA; pfam03968 868864003915 hypothetical protein; Region: PHA02141 868864003916 Lipopolysaccharide-assembly, LptC-related; Region: LptC; cl01200 868864003917 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 868864003918 active site 868864003919 motif I; other site 868864003920 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 868864003921 motif II; other site 868864003922 Protein of unknown function (DUF1847); Region: DUF1847; cl02037 868864003923 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 868864003924 substrate binding site [chemical binding]; other site 868864003925 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 868864003926 Transposase; Region: DEDD_Tnp_IS110; pfam01548 868864003927 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 868864003928 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 868864003929 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 868864003930 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 868864003931 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 868864003932 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 868864003933 metal-dependent hydrolase; Provisional; Region: PRK00685 868864003934 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 868864003935 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 868864003936 active site 868864003937 nucleophile elbow; other site 868864003938 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 868864003939 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 868864003940 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 868864003941 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 868864003942 Peptidase family M23; Region: Peptidase_M23; pfam01551 868864003943 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 868864003944 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 868864003945 Transposase; Region: DEDD_Tnp_IS110; pfam01548 868864003946 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 868864003947 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 868864003948 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 868864003949 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 868864003950 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 868864003951 NADH dehydrogenase; Region: NADHdh; cl00469 868864003952 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 868864003953 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 868864003954 NADH-ubiquinone/plastoquinone oxidoreductase chain 6; Region: Oxidored_q3; cl17265 868864003955 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 868864003956 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 868864003957 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 868864003958 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 868864003959 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 868864003960 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 868864003961 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 868864003962 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 868864003963 DsrE/DsrF-like family; Region: DrsE; cl00672 868864003964 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 868864003965 Probable transposase; Region: OrfB_IS605; pfam01385 868864003966 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 868864003967 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 868864003968 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 868864003969 generic binding surface II; other site 868864003970 generic binding surface I; other site 868864003971 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 868864003972 Zn2+ binding site [ion binding]; other site 868864003973 Mg2+ binding site [ion binding]; other site 868864003974 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 868864003975 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 868864003976 dimerization interface [polypeptide binding]; other site 868864003977 putative ATP binding site [chemical binding]; other site 868864003978 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 868864003979 active site 868864003980 substrate binding site [chemical binding]; other site 868864003981 cosubstrate binding site; other site 868864003982 catalytic site [active] 868864003983 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 868864003984 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 868864003985 Protein of unknown function (DUF523); Region: DUF523; cl00733 868864003986 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 868864003987 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 868864003988 FMN binding site [chemical binding]; other site 868864003989 substrate binding site [chemical binding]; other site 868864003990 putative catalytic residue [active] 868864003991 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 868864003992 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 868864003993 binding surface 868864003994 TPR motif; other site 868864003995 Myo-inositol-1-phosphate synthase [Lipid metabolism]; Region: INO1; COG1260 868864003996 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 868864003997 tetramerization interface [polypeptide binding]; other site 868864003998 active site 868864003999 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 868864004000 putative ligand binding pocket/active site [active] 868864004001 putative metal binding site [ion binding]; other site 868864004002 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 868864004003 dimerization interface [polypeptide binding]; other site 868864004004 putative DNA binding site [nucleotide binding]; other site 868864004005 putative Zn2+ binding site [ion binding]; other site 868864004006 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 868864004007 catalytic residues [active] 868864004008 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 868864004009 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 868864004010 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 868864004011 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 868864004012 catalytic residues [active] 868864004013 Predicted GTPase [General function prediction only]; Region: COG0218 868864004014 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 868864004015 G1 box; other site 868864004016 GTP/Mg2+ binding site [chemical binding]; other site 868864004017 Switch I region; other site 868864004018 G2 box; other site 868864004019 G3 box; other site 868864004020 Switch II region; other site 868864004021 G4 box; other site 868864004022 G5 box; other site 868864004023 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 868864004024 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 868864004025 Walker A/P-loop; other site 868864004026 ATP binding site [chemical binding]; other site 868864004027 Q-loop/lid; other site 868864004028 basic leucine zipper DNA-binding and multimerization region of GCN4 and related proteins; Region: B_zip1; cl02576 868864004029 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 868864004030 ABC transporter signature motif; other site 868864004031 Walker B; other site 868864004032 D-loop; other site 868864004033 H-loop/switch region; other site 868864004034 Citrate transporter; Region: CitMHS; pfam03600 868864004035 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 868864004036 transmembrane helices; other site 868864004037 Uncharacterized protein family, UPF0114; Region: UPF0114; pfam03350 868864004038 FliG N-terminal domain; Region: FliG_N; pfam14842 868864004039 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 868864004040 FliG middle domain; Region: FliG_M; pfam14841 868864004041 FliG C-terminal domain; Region: FliG_C; pfam01706 868864004042 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 868864004043 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 868864004044 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 868864004045 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 868864004046 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 868864004047 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 868864004048 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 868864004049 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 868864004050 flagellar basal body rod protein FlgB; Provisional; Region: flgB; cl19173 868864004051 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 868864004052 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 868864004053 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 868864004054 Flagellar L-ring protein; Region: FlgH; pfam02107 868864004055 Flagellar P-ring protein; Region: FlgI; pfam02119 868864004056 Rod binding protein; Region: Rod-binding; cl01626 868864004057 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 868864004058 Flagellar GTP-binding protein [Cell motility and secretion]; Region: FlhF; COG1419 868864004059 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 868864004060 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 868864004061 Walker A/P-loop; other site 868864004062 ATP binding site [chemical binding]; other site 868864004063 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 868864004064 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 868864004065 P-loop; other site 868864004066 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 868864004067 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 868864004068 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; cl17257 868864004069 DNA binding residues [nucleotide binding] 868864004070 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 868864004071 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 868864004072 TPR motif; other site 868864004073 binding surface 868864004074 flagellar basal body rod protein FlgB; Provisional; Region: flgB; cl19173 868864004075 flagellar basal-body rod protein FlgB; Region: FlgB; TIGR01396 868864004076 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 868864004077 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 868864004078 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 868864004079 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 868864004080 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 868864004081 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 868864004082 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 868864004083 Flagellar biosynthesis/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliH; COG1317 868864004084 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 868864004085 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 868864004086 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 868864004087 Walker A motif; other site 868864004088 ATP binding site [chemical binding]; other site 868864004089 Walker B motif; other site 868864004090 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 868864004091 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 868864004092 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 868864004093 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 868864004094 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 868864004095 flagellar basal body rod protein FlgB; Provisional; Region: flgB; cl19173 868864004096 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 868864004097 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 868864004098 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 868864004099 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 868864004100 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 868864004101 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 868864004102 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 868864004103 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 868864004104 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 868864004105 MgtE intracellular N domain; Region: MgtE_N; cl15244 868864004106 PilZ domain; Region: PilZ; pfam07238 868864004107 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 868864004108 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 868864004109 Ligand Binding Site [chemical binding]; other site 868864004110 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 868864004111 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 868864004112 F0F1 ATP synthase subunit B; Provisional; Region: PRK14471; cl17192 868864004113 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 868864004114 ATP synthase delta (OSCP) subunit; Region: OSCP; cl17210 868864004115 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 868864004116 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 868864004117 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 868864004118 beta subunit interaction interface [polypeptide binding]; other site 868864004119 Walker A motif; other site 868864004120 ATP binding site [chemical binding]; other site 868864004121 Walker B motif; other site 868864004122 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 868864004123 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 868864004124 core domain interface [polypeptide binding]; other site 868864004125 delta subunit interface [polypeptide binding]; other site 868864004126 epsilon subunit interface [polypeptide binding]; other site 868864004127 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 868864004128 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 868864004129 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 868864004130 alpha subunit interaction interface [polypeptide binding]; other site 868864004131 Walker A motif; other site 868864004132 ATP binding site [chemical binding]; other site 868864004133 Walker B motif; other site 868864004134 inhibitor binding site; inhibition site 868864004135 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 868864004136 ATP synthase, F1 epsilon subunit (delta in mitochondria); Region: ATP_synt_epsi; TIGR01216 868864004137 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 868864004138 gamma subunit interface [polypeptide binding]; other site 868864004139 epsilon subunit interface [polypeptide binding]; other site 868864004140 LBP interface [polypeptide binding]; other site 868864004141 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 868864004142 non-heme iron binding site [ion binding]; other site 868864004143 Helix-turn-helix domain; Region: HTH_28; pfam13518 868864004144 Winged helix-turn helix; Region: HTH_29; pfam13551 868864004145 Homeodomain-like domain; Region: HTH_32; pfam13565 868864004146 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 868864004147 Integrase core domain; Region: rve; pfam00665 868864004148 Integrase core domain; Region: rve_3; pfam13683 868864004149 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 868864004150 23S rRNA interface [nucleotide binding]; other site 868864004151 L3 interface [polypeptide binding]; other site 868864004152 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 868864004153 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 868864004154 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 868864004155 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl19935 868864004156 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 868864004157 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 868864004158 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 868864004159 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 868864004160 RNase III inhibitor; Provisional; Region: PRK00431 868864004161 ADP-ribose binding site [chemical binding]; other site 868864004162 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 868864004163 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 868864004164 Clp amino terminal domain; Region: Clp_N; pfam02861 868864004165 Clp amino terminal domain; Region: Clp_N; pfam02861 868864004166 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 868864004167 Walker A motif; other site 868864004168 ATP binding site [chemical binding]; other site 868864004169 Walker B motif; other site 868864004170 arginine finger; other site 868864004171 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 868864004172 Walker A motif; other site 868864004173 ATP binding site [chemical binding]; other site 868864004174 Walker B motif; other site 868864004175 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 868864004176 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 868864004177 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 868864004178 Walker A/P-loop; other site 868864004179 ATP binding site [chemical binding]; other site 868864004180 Q-loop/lid; other site 868864004181 ABC transporter signature motif; other site 868864004182 Walker B; other site 868864004183 D-loop; other site 868864004184 H-loop/switch region; other site 868864004185 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 868864004186 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 868864004187 metal binding triad [ion binding]; metal-binding site 868864004188 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 868864004189 HD domain; Region: HD; pfam01966 868864004190 chlorohydrolase; Provisional; Region: PRK08418 868864004191 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 868864004192 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 868864004193 active site 868864004194 ResB-like family; Region: ResB; pfam05140 868864004195 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 868864004196 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 868864004197 Pantoate-beta-alanine ligase; Region: PanC; cd00560 868864004198 active site 868864004199 ATP-binding site [chemical binding]; other site 868864004200 pantoate-binding site; other site 868864004201 HXXH motif; other site 868864004202 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 868864004203 Domain of unknown function DUF77; Region: DUF77; pfam01910 868864004204 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 868864004205 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 868864004206 ATP binding site [chemical binding]; other site 868864004207 putative Mg++ binding site [ion binding]; other site 868864004208 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 868864004209 nucleotide binding region [chemical binding]; other site 868864004210 ATP-binding site [chemical binding]; other site 868864004211 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 868864004212 binding surface 868864004213 Tetratricopeptide repeat; Region: TPR_16; pfam13432 868864004214 TPR motif; other site 868864004215 Tetratricopeptide repeat; Region: TPR_16; pfam13432 868864004216 Tetratricopeptide repeat; Region: TPR_16; pfam13432 868864004217 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 868864004218 binding surface 868864004219 TPR motif; other site 868864004220 TPR repeat; Region: TPR_11; pfam13414 868864004221 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 868864004222 binding surface 868864004223 TPR motif; other site 868864004224 Tetratricopeptide repeat; Region: TPR_16; pfam13432 868864004225 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 868864004226 binding surface 868864004227 TPR motif; other site 868864004228 Tetratricopeptide repeat; Region: TPR_19; pfam14559 868864004229 TPR repeat; Region: TPR_11; pfam13414 868864004230 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 868864004231 binding surface 868864004232 TPR motif; other site 868864004233 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 868864004234 Transposase; Region: DEDD_Tnp_IS110; pfam01548 868864004235 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 868864004236 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 868864004237 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 868864004238 23S rRNA binding site [nucleotide binding]; other site 868864004239 L21 binding site [polypeptide binding]; other site 868864004240 L13 binding site [polypeptide binding]; other site 868864004241 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 868864004242 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 868864004243 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 868864004244 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 868864004245 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 868864004246 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 868864004247 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 868864004248 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 868864004249 active site 868864004250 dimer interface [polypeptide binding]; other site 868864004251 motif 1; other site 868864004252 motif 2; other site 868864004253 motif 3; other site 868864004254 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 868864004255 anticodon binding site; other site 868864004256 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 868864004257 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 868864004258 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 868864004259 Cell division protein FtsL; Region: FtsL; cl11433 868864004260 amidophosphoribosyltransferase; Provisional; Region: PRK09123 868864004261 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 868864004262 active site 868864004263 tetramer interface [polypeptide binding]; other site 868864004264 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 868864004265 active site 868864004266 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 868864004267 ATP binding site [chemical binding]; other site 868864004268 active site 868864004269 substrate binding site [chemical binding]; other site 868864004270 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK00927 868864004271 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 868864004272 active site 868864004273 HIGH motif; other site 868864004274 dimer interface [polypeptide binding]; other site 868864004275 KMSKS motif; other site 868864004276 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 868864004277 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 868864004278 catalytic motif [active] 868864004279 Zn binding site [ion binding]; other site 868864004280 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 868864004281 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 868864004282 S-adenosylmethionine binding site [chemical binding]; other site 868864004283 potential frameshift: common BLAST hit: gi|319789555|ref|YP_004151188.1| glycosyl transferase family 2 868864004284 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 868864004285 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 868864004286 active site 868864004287 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 868864004288 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 868864004289 Probable Catalytic site; other site 868864004290 metal-binding site 868864004291 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 868864004292 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 868864004293 active site 868864004294 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 868864004295 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 868864004296 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 868864004297 putative metal binding site; other site 868864004298 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 868864004299 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 868864004300 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 868864004301 FlaG protein; Region: FlaG; pfam03646 868864004302 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 868864004303 Flagellar hook-associated protein 2 N-terminus; Region: FliD_N; pfam02465 868864004304 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 868864004305 Flagellar protein FliS; Region: FliS; cl00654 868864004306 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 868864004307 AAA domain; Region: AAA_26; pfam13500 868864004308 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 868864004309 Cation transport protein; Region: TrkH; cl17365 868864004310 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 868864004311 TrkA-N domain; Region: TrkA_N; pfam02254 868864004312 TrkA-C domain; Region: TrkA_C; pfam02080 868864004313 TrkA-N domain; Region: TrkA_N; pfam02254 868864004314 TrkA-C domain; Region: TrkA_C; pfam02080 868864004315 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 868864004316 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 868864004317 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 868864004318 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 868864004319 homodimer interface [polypeptide binding]; other site 868864004320 substrate-cofactor binding pocket; other site 868864004321 catalytic residue [active] 868864004322 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 868864004323 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 868864004324 oligomeric interface; other site 868864004325 putative active site [active] 868864004326 homodimer interface [polypeptide binding]; other site 868864004327 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 868864004328 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 868864004329 catalytic loop [active] 868864004330 iron binding site [ion binding]; other site 868864004331 Domain of unknown function (DUF4445); Region: DUF4445; pfam14574 868864004332 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 868864004333 Tetramer interface [polypeptide binding]; other site 868864004334 active site 868864004335 FMN-binding site [chemical binding]; other site 868864004336 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 868864004337 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 868864004338 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 868864004339 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 868864004340 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 868864004341 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 868864004342 NADP-binding site; other site 868864004343 homotetramer interface [polypeptide binding]; other site 868864004344 substrate binding site [chemical binding]; other site 868864004345 homodimer interface [polypeptide binding]; other site 868864004346 active site 868864004347 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 868864004348 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 868864004349 S-adenosylmethionine binding site [chemical binding]; other site 868864004350 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 868864004351 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 868864004352 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 868864004353 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 868864004354 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 868864004355 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 868864004356 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 868864004357 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 868864004358 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 868864004359 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 868864004360 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 868864004361 Walker A/P-loop; other site 868864004362 ATP binding site [chemical binding]; other site 868864004363 Q-loop/lid; other site 868864004364 ABC transporter signature motif; other site 868864004365 Walker B; other site 868864004366 D-loop; other site 868864004367 H-loop/switch region; other site 868864004368 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 868864004369 putative carbohydrate binding site [chemical binding]; other site 868864004370 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 868864004371 Outer membrane efflux protein; Region: OEP; pfam02321 868864004372 Outer membrane efflux protein; Region: OEP; pfam02321 868864004373 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 868864004374 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 868864004375 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 868864004376 HlyD family secretion protein; Region: HlyD_3; pfam13437 868864004377 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 868864004378 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 868864004379 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 868864004380 Walker A/P-loop; other site 868864004381 ATP binding site [chemical binding]; other site 868864004382 Q-loop/lid; other site 868864004383 ABC transporter signature motif; other site 868864004384 Walker B; other site 868864004385 D-loop; other site 868864004386 H-loop/switch region; other site 868864004387 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 868864004388 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 868864004389 active site 868864004390 HIGH motif; other site 868864004391 KMSKS motif; other site 868864004392 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 868864004393 tRNA binding surface [nucleotide binding]; other site 868864004394 anticodon binding site; other site 868864004395 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 868864004396 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 868864004397 homodimer interface [polypeptide binding]; other site 868864004398 metal binding site [ion binding]; metal-binding site 868864004399 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 868864004400 homodimer interface [polypeptide binding]; other site 868864004401 active site 868864004402 putative chemical substrate binding site [chemical binding]; other site 868864004403 metal binding site [ion binding]; metal-binding site 868864004404 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 868864004405 Ligand Binding Site [chemical binding]; other site 868864004406 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 868864004407 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl19066 868864004408 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 868864004409 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 868864004410 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 868864004411 RuvA N terminal domain; Region: RuvA_N; pfam01330 868864004412 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 868864004413 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 868864004414 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 868864004415 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 868864004416 Walker A motif; other site 868864004417 ATP binding site [chemical binding]; other site 868864004418 Walker B motif; other site 868864004419 arginine finger; other site 868864004420 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 868864004421 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 868864004422 dimer interface [polypeptide binding]; other site 868864004423 substrate binding site [chemical binding]; other site 868864004424 metal binding sites [ion binding]; metal-binding site 868864004425 Transposase; Region: DEDD_Tnp_IS110; pfam01548 868864004426 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 868864004427 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 868864004428 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 868864004429 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 868864004430 [4Fe-4S] binding site [ion binding]; other site 868864004431 molybdopterin cofactor binding site; other site 868864004432 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 868864004433 molybdopterin cofactor binding site; other site 868864004434 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 868864004435 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 868864004436 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 868864004437 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 868864004438 FeoA domain; Region: FeoA; pfam04023 868864004439 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 868864004440 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 868864004441 G1 box; other site 868864004442 GTP/Mg2+ binding site [chemical binding]; other site 868864004443 Switch I region; other site 868864004444 G2 box; other site 868864004445 G3 box; other site 868864004446 Switch II region; other site 868864004447 G4 box; other site 868864004448 G5 box; other site 868864004449 Nucleoside recognition; Region: Gate; pfam07670 868864004450 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 868864004451 Nucleoside recognition; Region: Gate; pfam07670 868864004452 DNA repair protein RadA; Provisional; Region: PRK11823 868864004453 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 868864004454 Walker A motif/ATP binding site; other site 868864004455 ATP binding site [chemical binding]; other site 868864004456 Walker B motif; other site 868864004457 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 868864004458 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 868864004459 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 868864004460 FMN binding site [chemical binding]; other site 868864004461 active site 868864004462 catalytic residues [active] 868864004463 substrate binding site [chemical binding]; other site 868864004464 Radical SAM superfamily; Region: Radical_SAM; pfam04055 868864004465 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 868864004466 FeS/SAM binding site; other site 868864004467 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 868864004468 active site 868864004469 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 868864004470 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 868864004471 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 868864004472 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 868864004473 tetramer interfaces [polypeptide binding]; other site 868864004474 binuclear metal-binding site [ion binding]; other site 868864004475 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 868864004476 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 868864004477 ATP-grasp domain; Region: ATP-grasp_4; cl17255 868864004478 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 868864004479 pyruvate carboxylase subunit B; Validated; Region: PRK09282 868864004480 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 868864004481 active site 868864004482 catalytic residues [active] 868864004483 metal binding site [ion binding]; metal-binding site 868864004484 homodimer binding site [polypeptide binding]; other site 868864004485 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 868864004486 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 868864004487 carboxyltransferase (CT) interaction site; other site 868864004488 biotinylation site [posttranslational modification]; other site 868864004489 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 868864004490 ligand-binding site [chemical binding]; other site 868864004491 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 868864004492 ATP-sulfurylase; Region: ATPS; cd00517 868864004493 active site 868864004494 HXXH motif; other site 868864004495 flexible loop; other site 868864004496 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 868864004497 putative active site [active] 868864004498 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 868864004499 active site 868864004500 NTP binding site [chemical binding]; other site 868864004501 metal binding triad [ion binding]; metal-binding site 868864004502 antibiotic binding site [chemical binding]; other site 868864004503 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 868864004504 Bacterial sugar transferase; Region: Bac_transf; pfam02397 868864004505 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 868864004506 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 868864004507 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 868864004508 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 868864004509 UDP-galactopyranose mutase; Region: GLF; pfam03275 868864004510 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 868864004511 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 868864004512 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 868864004513 Probable Catalytic site; other site 868864004514 metal-binding site 868864004515 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 868864004516 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 868864004517 putative ADP-binding pocket [chemical binding]; other site 868864004518 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 868864004519 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 868864004520 Substrate binding site; other site 868864004521 Cupin domain; Region: Cupin_2; cl17218 868864004522 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 868864004523 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cl01898 868864004524 putative active site [active] 868864004525 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 868864004526 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 868864004527 substrate binding site; other site 868864004528 tetramer interface; other site 868864004529 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 868864004530 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 868864004531 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 868864004532 NAD binding site [chemical binding]; other site 868864004533 substrate binding site [chemical binding]; other site 868864004534 homodimer interface [polypeptide binding]; other site 868864004535 active site 868864004536 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 868864004537 putative active site [active] 868864004538 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 868864004539 active site 868864004540 NTP binding site [chemical binding]; other site 868864004541 metal binding triad [ion binding]; metal-binding site 868864004542 antibiotic binding site [chemical binding]; other site 868864004543 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 868864004544 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 868864004545 NADP binding site [chemical binding]; other site 868864004546 active site 868864004547 putative substrate binding site [chemical binding]; other site 868864004548 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 868864004549 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 868864004550 NAD binding site [chemical binding]; other site 868864004551 homodimer interface [polypeptide binding]; other site 868864004552 active site 868864004553 substrate binding site [chemical binding]; other site 868864004554 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl19158 868864004555 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 868864004556 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 868864004557 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 868864004558 Walker A motif; other site 868864004559 ATP binding site [chemical binding]; other site 868864004560 Walker B motif; other site 868864004561 arginine finger; other site 868864004562 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 868864004563 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 868864004564 substrate binding site [chemical binding]; other site 868864004565 ligand binding site [chemical binding]; other site 868864004566 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 868864004567 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 868864004568 Walker A/P-loop; other site 868864004569 ATP binding site [chemical binding]; other site 868864004570 Q-loop/lid; other site 868864004571 ABC transporter signature motif; other site 868864004572 Walker B; other site 868864004573 D-loop; other site 868864004574 H-loop/switch region; other site 868864004575 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 868864004576 pyruvate phosphate dikinase; Provisional; Region: PRK09279 868864004577 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 868864004578 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 868864004579 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 868864004580 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 868864004581 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 868864004582 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 868864004583 dimer interface [polypeptide binding]; other site 868864004584 motif 1; other site 868864004585 active site 868864004586 motif 2; other site 868864004587 motif 3; other site 868864004588 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 868864004589 Ligand Binding Site [chemical binding]; other site 868864004590 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 868864004591 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 868864004592 FeS/SAM binding site; other site 868864004593 HemN C-terminal domain; Region: HemN_C; pfam06969 868864004594 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 868864004595 binding surface 868864004596 TPR motif; other site 868864004597 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 868864004598 Probable transposase; Region: OrfB_IS605; pfam01385 868864004599 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 868864004600 ornithine carbamoyltransferase; Provisional; Region: PRK00779 868864004601 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 868864004602 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 868864004603 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 868864004604 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 868864004605 diiron binding motif [ion binding]; other site 868864004606 VIT family; Region: VIT1; pfam01988 868864004607 peptide chain release factor 2; Validated; Region: prfB; PRK00578 868864004608 PCRF domain; Region: PCRF; pfam03462 868864004609 RF-1 domain; Region: RF-1; pfam00472 868864004610 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 868864004611 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 868864004612 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 868864004613 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 868864004614 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 868864004615 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 868864004616 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 868864004617 glutamine binding [chemical binding]; other site 868864004618 catalytic triad [active] 868864004619 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 868864004620 Periplasmic solute binding protein family; Region: TroA; pfam01297 868864004621 intersubunit interface [polypeptide binding]; other site 868864004622 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 868864004623 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 868864004624 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 868864004625 catalytic site [active] 868864004626 subunit interface [polypeptide binding]; other site 868864004627 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 868864004628 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 868864004629 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 868864004630 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 868864004631 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 868864004632 putative RNA binding site [nucleotide binding]; other site 868864004633 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 868864004634 S-adenosylmethionine binding site [chemical binding]; other site 868864004635 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 868864004636 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 868864004637 active site 868864004638 tetramer interface; other site 868864004639 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 868864004640 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 868864004641 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 868864004642 Walker A motif; other site 868864004643 ATP binding site [chemical binding]; other site 868864004644 Walker B motif; other site 868864004645 arginine finger; other site 868864004646 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 868864004647 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 868864004648 ATP synthase subunit C; Region: ATP-synt_C; cl00466 868864004649 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 868864004650 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 868864004651 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 868864004652 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 868864004653 inhibitor-cofactor binding pocket; inhibition site 868864004654 pyridoxal 5'-phosphate binding site [chemical binding]; other site 868864004655 catalytic residue [active] 868864004656 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 868864004657 putative active site pocket [active] 868864004658 4-fold oligomerization interface [polypeptide binding]; other site 868864004659 metal binding residues [ion binding]; metal-binding site 868864004660 3-fold/trimer interface [polypeptide binding]; other site 868864004661 Chorismate mutase type II; Region: CM_2; smart00830 868864004662 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 868864004663 Prephenate dehydratase; Region: PDT; pfam00800 868864004664 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 868864004665 putative L-Phe binding site [chemical binding]; other site 868864004666 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 868864004667 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 868864004668 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 868864004669 RimM N-terminal domain; Region: RimM; pfam01782 868864004670 PRC-barrel domain; Region: PRC; pfam05239 868864004671 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 868864004672 active site 868864004673 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 868864004674 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 868864004675 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 868864004676 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 868864004677 Protein of unknown function (DUF342); Region: DUF342; cl19219 868864004678 Putative zinc ribbon domain; Region: DUF164; pfam02591 868864004679 Protein of unknown function (DUF964); Region: DUF964; pfam06133 868864004680 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 868864004681 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 868864004682 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 868864004683 hinge region; other site 868864004684 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 868864004685 putative nucleotide binding site [chemical binding]; other site 868864004686 uridine monophosphate binding site [chemical binding]; other site 868864004687 homohexameric interface [polypeptide binding]; other site 868864004688 elongation factor Ts; Reviewed; Region: tsf; PRK12332 868864004689 UBA/TS-N domain; Region: UBA; pfam00627 868864004690 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 868864004691 rRNA interaction site [nucleotide binding]; other site 868864004692 S8 interaction site; other site 868864004693 putative laminin-1 binding site; other site 868864004694 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 868864004695 Transposase; Region: DEDD_Tnp_IS110; pfam01548 868864004696 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 868864004697 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 868864004698 Endonuclease IV [DNA replication, recombination, and repair]; Region: Nfo; COG0648 868864004699 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 868864004700 AP (apurinic/apyrimidinic) site pocket; other site 868864004701 DNA interaction; other site 868864004702 Metal-binding active site; metal-binding site 868864004703 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 868864004704 active site 868864004705 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 868864004706 Peptidase family M23; Region: Peptidase_M23; pfam01551 868864004707 primosome assembly protein PriA; Validated; Region: PRK05580 868864004708 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 868864004709 ATP binding site [chemical binding]; other site 868864004710 putative Mg++ binding site [ion binding]; other site 868864004711 HIT zinc finger; Region: zf-HIT; pfam04438 868864004712 helicase superfamily c-terminal domain; Region: HELICc; smart00490 868864004713 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 868864004714 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 868864004715 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 868864004716 putative metal binding site; other site 868864004717 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 868864004718 putative active site [active] 868864004719 putative metal binding site [ion binding]; other site 868864004720 4-diphosphocytidyl-2C-methyl-D-erythritol 2-phosphate synthase [Lipid metabolism]; Region: IspE; COG1947 868864004721 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 868864004722 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 868864004723 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 868864004724 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 868864004725 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 868864004726 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 868864004727 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 868864004728 Walker A motif; other site 868864004729 ATP binding site [chemical binding]; other site 868864004730 Walker B motif; other site 868864004731 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 868864004732 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 868864004733 Sporulation related domain; Region: SPOR; pfam05036 868864004734 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 868864004735 binding surface 868864004736 TPR motif; other site 868864004737 TPR repeat; Region: TPR_11; pfam13414 868864004738 Tetratricopeptide repeat; Region: TPR_16; pfam13432 868864004739 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 868864004740 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 868864004741 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 868864004742 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 868864004743 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 868864004744 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 868864004745 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 868864004746 Walker A/P-loop; other site 868864004747 ATP binding site [chemical binding]; other site 868864004748 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 868864004749 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 868864004750 Protein of unknown function (DUF342); Region: DUF342; cl19219 868864004751 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 868864004752 ABC transporter signature motif; other site 868864004753 Walker B; other site 868864004754 D-loop; other site 868864004755 H-loop/switch region; other site 868864004756 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 868864004757 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 868864004758 NAD(P) binding site [chemical binding]; other site 868864004759 active site 868864004760 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 868864004761 replicative DNA helicase; Validated; Region: PRK07773 868864004762 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 868864004763 Walker A motif; other site 868864004764 ATP binding site [chemical binding]; other site 868864004765 Walker B motif; other site 868864004766 DNA binding loops [nucleotide binding] 868864004767 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 868864004768 protein-splicing catalytic site; other site 868864004769 thioester formation/cholesterol transfer; other site 868864004770 LAGLIDADG-like domain; Region: LAGLIDADG_3; pfam14528 868864004771 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 868864004772 protein-splicing catalytic site; other site 868864004773 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 868864004774 anthranilate synthase component I; Provisional; Region: PRK13565 868864004775 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 868864004776 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 868864004777 transcriptional activator RfaH; Region: RfaH; TIGR01955 868864004778 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 868864004779 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 868864004780 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 868864004781 Probable transposase; Region: OrfB_IS605; pfam01385 868864004782 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 868864004783 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 868864004784 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 868864004785 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 868864004786 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 868864004787 nudix motif; other site 868864004788 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 868864004789 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 868864004790 Substrate binding site; other site 868864004791 Mg++ binding site; other site 868864004792 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 868864004793 active site 868864004794 substrate binding site [chemical binding]; other site 868864004795 CoA binding site [chemical binding]; other site 868864004796 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 868864004797 active site 868864004798 ribulose/triose binding site [chemical binding]; other site 868864004799 phosphate binding site [ion binding]; other site 868864004800 substrate (anthranilate) binding pocket [chemical binding]; other site 868864004801 product (indole) binding pocket [chemical binding]; other site 868864004802 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 868864004803 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 868864004804 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 868864004805 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 868864004806 active site 868864004807 HIGH motif; other site 868864004808 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 868864004809 KMSKS motif; other site 868864004810 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 868864004811 tRNA binding surface [nucleotide binding]; other site 868864004812 anticodon binding site; other site 868864004813 Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits...; Region: Prefoldin; cd00890 868864004814 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 868864004815 nucleoside/Zn binding site; other site 868864004816 dimer interface [polypeptide binding]; other site 868864004817 catalytic motif [active] 868864004818 recombinase A; Provisional; Region: recA; PRK09354 868864004819 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 868864004820 hexamer interface [polypeptide binding]; other site 868864004821 Walker A motif; other site 868864004822 ATP binding site [chemical binding]; other site 868864004823 Walker B motif; other site 868864004824 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 868864004825 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 868864004826 Walker A motif; other site 868864004827 ATP binding site [chemical binding]; other site 868864004828 Walker B motif; other site 868864004829 recombination regulator RecX; Reviewed; Region: recX; PRK00117 868864004830 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 868864004831 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 868864004832 motif 1; other site 868864004833 active site 868864004834 motif 2; other site 868864004835 motif 3; other site 868864004836 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 868864004837 DHHA1 domain; Region: DHHA1; pfam02272 868864004838 ribulose-1,5-biphosphate synthetase; Provisional; Region: PRK04176 868864004839 thiazole biosynthesis enzyme; Region: TIGR00292 868864004840 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 868864004841 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 868864004842 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 868864004843 substrate binding site [chemical binding]; other site 868864004844 glutamase interaction surface [polypeptide binding]; other site 868864004845 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 868864004846 active site 868864004847 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 868864004848 substrate binding pocket [chemical binding]; other site 868864004849 chain length determination region; other site 868864004850 substrate-Mg2+ binding site; other site 868864004851 catalytic residues [active] 868864004852 aspartate-rich region 1; other site 868864004853 active site lid residues [active] 868864004854 aspartate-rich region 2; other site 868864004855 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 868864004856 MMPL family; Region: MMPL; cl14618 868864004857 MMPL family; Region: MMPL; cl14618 868864004858 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 868864004859 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 868864004860 Coiled-coil receptor-binding R-domain of colicin E2; Region: E2R135; pfam11570 868864004861 HlyD family secretion protein; Region: HlyD_3; pfam13437 868864004862 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 868864004863 Outer membrane efflux protein; Region: OEP; pfam02321 868864004864 Outer membrane efflux protein; Region: OEP; pfam02321 868864004865 Predicted permeases [General function prediction only]; Region: COG0701 868864004866 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 868864004867 Transposase; Region: DEDD_Tnp_IS110; pfam01548 868864004868 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 868864004869 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 868864004870 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 868864004871 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 868864004872 active site residue [active] 868864004873 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 868864004874 dimerization interface [polypeptide binding]; other site 868864004875 putative DNA binding site [nucleotide binding]; other site 868864004876 putative Zn2+ binding site [ion binding]; other site 868864004877 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 868864004878 Purine nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pnp; COG0005 868864004879 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. 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...; Region: DHOD_1B_like; cd04740 868864004880 heterodimer interface [polypeptide binding]; other site 868864004881 active site 868864004882 FMN binding site [chemical binding]; other site 868864004883 homodimer interface [polypeptide binding]; other site 868864004884 substrate binding site [chemical binding]; other site 868864004885 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 868864004886 TRAM domain; Region: TRAM; cl01282 868864004887 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 868864004888 S-adenosylmethionine binding site [chemical binding]; other site 868864004889 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 868864004890 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 868864004891 dimerization interface [polypeptide binding]; other site 868864004892 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 868864004893 dimer interface [polypeptide binding]; other site 868864004894 putative CheW interface [polypeptide binding]; other site 868864004895 PilZ domain; Region: PilZ; pfam07238 868864004896 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 868864004897 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 868864004898 FeS/SAM binding site; other site 868864004899 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 868864004900 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 868864004901 Walker A motif; other site 868864004902 ATP binding site [chemical binding]; other site 868864004903 Walker B motif; other site 868864004904 arginine finger; other site 868864004905 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 868864004906 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 868864004907 active site 868864004908 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 868864004909 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 868864004910 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 868864004911 G1 box; other site 868864004912 GTP/Mg2+ binding site [chemical binding]; other site 868864004913 G2 box; other site 868864004914 Switch I region; other site 868864004915 G3 box; other site 868864004916 Switch II region; other site 868864004917 H(2)-dependent methylenetetrahydromethanopterin dehydrogenase-related protein; Provisional; Region: PRK12557 868864004918 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl19126 868864004919 H2-forming N5,N10-methylene-tetrahydromethanopterin dehydrogenase; Region: HMD; pfam03201 868864004920 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 868864004921 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 868864004922 Radical SAM superfamily; Region: Radical_SAM; pfam04055 868864004923 FeS/SAM binding site; other site 868864004924 Protein of unknown function (DUF3236); Region: DUF3236; cl01643 868864004925 Protein of unknown function (DUF1188); Region: DUF1188; cl01642 868864004926 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 868864004927 Uncharacterized protein family (UPF0254); Region: UPF0254; cl01641 868864004928 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 868864004929 ATP binding site [chemical binding]; other site 868864004930 substrate interface [chemical binding]; other site 868864004931 Fibrillarin-like archaeal protein; Region: Fibrillarin_2; cl19509 868864004932 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 868864004933 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 868864004934 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 868864004935 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 868864004936 protein binding site [polypeptide binding]; other site 868864004937 Catalytic dyad [active] 868864004938 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 868864004939 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 868864004940 PYR/PP interface [polypeptide binding]; other site 868864004941 dimer interface [polypeptide binding]; other site 868864004942 TPP binding site [chemical binding]; other site 868864004943 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 868864004944 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 868864004945 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 868864004946 TPP-binding site [chemical binding]; other site 868864004947 dimer interface [polypeptide binding]; other site 868864004948 argininosuccinate lyase; Provisional; Region: PRK00855 868864004949 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 868864004950 active sites [active] 868864004951 tetramer interface [polypeptide binding]; other site 868864004952 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 868864004953 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 868864004954 active site 868864004955 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 868864004956 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 868864004957 active site 868864004958 Domain of unknown function (DUF1886); Region: DUF1886; cl01666 868864004959 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 868864004960 Part of AAA domain; Region: AAA_19; pfam13245 868864004961 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; cl19402 868864004962 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 868864004963 Queuine tRNA-ribosyltransferase; Region: TGT; cl19224 868864004964 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 868864004965 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 868864004966 RNA binding surface [nucleotide binding]; other site 868864004967 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 868864004968 S-adenosylmethionine binding site [chemical binding]; other site 868864004969 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 868864004970 RIP metalloprotease RseP; Region: TIGR00054 868864004971 active site 868864004972 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 868864004973 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 868864004974 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 868864004975 putative substrate binding region [chemical binding]; other site 868864004976 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 868864004977 MauM/NapG family ferredoxin-type protein; Region: mauM_napG; TIGR00397 868864004978 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 868864004979 Predicted membrane protein [Function unknown]; Region: COG1238 868864004980 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 868864004981 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 868864004982 Selenophosphate synthase [Amino acid transport and metabolism]; Region: SelD; COG0709 868864004983 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 868864004984 dimerization interface [polypeptide binding]; other site 868864004985 putative ATP binding site [chemical binding]; other site 868864004986 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 868864004987 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 868864004988 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 868864004989 FeS/SAM binding site; other site 868864004990 Domain of unknown function DUF39; Region: DUF39; pfam01837 868864004991 putative methanogenesis marker 16 metalloprotein; Region: methan_mark_16; TIGR03287 868864004992 homoserine kinase; Provisional; Region: PRK01212 868864004993 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 868864004994 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 868864004995 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 868864004996 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 868864004997 MgtC family; Region: MgtC; pfam02308 868864004998 Predicted membrane protein [Function unknown]; Region: COG3174 868864004999 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 868864005000 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 868864005001 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 868864005002 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 868864005003 shikimate binding site; other site 868864005004 NAD(P) binding site [chemical binding]; other site 868864005005 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 868864005006 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 868864005007 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 868864005008 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 868864005009 prolyl-tRNA synthetase; Provisional; Region: PRK09194 868864005010 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 868864005011 dimer interface [polypeptide binding]; other site 868864005012 motif 1; other site 868864005013 active site 868864005014 motif 2; other site 868864005015 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 868864005016 putative deacylase active site [active] 868864005017 motif 3; other site 868864005018 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 868864005019 anticodon binding site; other site