-- dump date 20140619_145302 -- class Genbank::misc_feature -- table misc_feature_note -- id note 666681000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 666681000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 666681000003 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 666681000004 Walker A motif; other site 666681000005 ATP binding site [chemical binding]; other site 666681000006 Walker B motif; other site 666681000007 arginine finger; other site 666681000008 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 666681000009 DnaA box-binding interface [nucleotide binding]; other site 666681000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 666681000011 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 666681000012 putative DNA binding surface [nucleotide binding]; other site 666681000013 dimer interface [polypeptide binding]; other site 666681000014 beta-clamp/clamp loader binding surface; other site 666681000015 beta-clamp/translesion DNA polymerase binding surface; other site 666681000016 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 666681000017 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 666681000018 Mg2+ binding site [ion binding]; other site 666681000019 G-X-G motif; other site 666681000020 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 666681000021 anchoring element; other site 666681000022 dimer interface [polypeptide binding]; other site 666681000023 ATP binding site [chemical binding]; other site 666681000024 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 666681000025 active site 666681000026 putative metal-binding site [ion binding]; other site 666681000027 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 666681000028 transposase/IS protein; Provisional; Region: PRK09183 666681000029 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 666681000030 Walker A motif; other site 666681000031 ATP binding site [chemical binding]; other site 666681000032 Walker B motif; other site 666681000033 arginine finger; other site 666681000034 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 666681000035 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 666681000036 DNA binding residues [nucleotide binding] 666681000037 Integrase core domain; Region: rve; pfam00665 666681000038 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 666681000039 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 666681000040 putative active site [active] 666681000041 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 666681000042 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 666681000043 Walker A/P-loop; other site 666681000044 ATP binding site [chemical binding]; other site 666681000045 Q-loop/lid; other site 666681000046 ABC transporter signature motif; other site 666681000047 Walker B; other site 666681000048 D-loop; other site 666681000049 H-loop/switch region; other site 666681000050 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 666681000051 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 666681000052 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 666681000053 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 666681000054 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 666681000055 Cadherin repeat-like domain; Region: CA_like; cl15786 666681000056 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 666681000057 Ca2+ binding site [ion binding]; other site 666681000058 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 666681000059 Cadherin repeat-like domain; Region: CA_like; cl15786 666681000060 Ca2+ binding site [ion binding]; other site 666681000061 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 666681000062 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 666681000063 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 666681000064 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 666681000065 HlyD family secretion protein; Region: HlyD_3; pfam13437 666681000066 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 666681000067 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 666681000068 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 666681000069 Walker A motif; other site 666681000070 ATP binding site [chemical binding]; other site 666681000071 Walker B motif; other site 666681000072 arginine finger; other site 666681000073 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 666681000074 trimer interface [polypeptide binding]; other site 666681000075 active site 666681000076 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 666681000077 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 666681000078 GAF domain; Region: GAF; pfam01590 666681000079 PAS domain S-box; Region: sensory_box; TIGR00229 666681000080 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 666681000081 putative active site [active] 666681000082 heme pocket [chemical binding]; other site 666681000083 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681000084 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681000085 metal binding site [ion binding]; metal-binding site 666681000086 active site 666681000087 I-site; other site 666681000088 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 666681000089 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 666681000090 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 666681000091 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 666681000092 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 666681000093 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 666681000094 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 666681000095 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 666681000096 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 666681000097 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 666681000098 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 666681000099 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 666681000100 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 666681000101 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 666681000102 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 666681000103 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 666681000104 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 666681000105 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 666681000106 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 666681000107 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 666681000108 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 666681000109 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 666681000110 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 666681000111 Uncharacterized conserved protein [Function unknown]; Region: COG2308 666681000112 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 666681000113 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 666681000114 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 666681000115 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 666681000116 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 666681000117 Rubredoxin [Energy production and conversion]; Region: COG1773 666681000118 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 666681000119 iron binding site [ion binding]; other site 666681000120 Cytochrome c2 [Energy production and conversion]; Region: COG3474 666681000121 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 666681000122 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 666681000123 potential catalytic triad [active] 666681000124 conserved cys residue [active] 666681000125 PgaD-like protein; Region: PgaD; cl14676 666681000126 N-glycosyltransferase; Provisional; Region: PRK11204 666681000127 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 666681000128 DXD motif; other site 666681000129 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 666681000130 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 666681000131 putative active site [active] 666681000132 putative metal binding site [ion binding]; other site 666681000133 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 666681000134 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 666681000135 TPR motif; other site 666681000136 binding surface 666681000137 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 666681000138 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 666681000139 tetramer interface [polypeptide binding]; other site 666681000140 heme binding pocket [chemical binding]; other site 666681000141 NADPH binding site [chemical binding]; other site 666681000142 Transcriptional regulator [Transcription]; Region: LysR; COG0583 666681000143 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 666681000144 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 666681000145 dimerization interface [polypeptide binding]; other site 666681000146 PqqA family; Region: PqqA; cl15372 666681000147 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 666681000148 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 666681000149 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 666681000150 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 666681000151 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 666681000152 S-adenosylmethionine binding site [chemical binding]; other site 666681000153 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 666681000154 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 666681000155 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 666681000156 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 666681000157 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 666681000158 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 666681000159 carboxyltransferase (CT) interaction site; other site 666681000160 biotinylation site [posttranslational modification]; other site 666681000161 Dehydroquinase class II; Region: DHquinase_II; pfam01220 666681000162 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 666681000163 trimer interface [polypeptide binding]; other site 666681000164 active site 666681000165 dimer interface [polypeptide binding]; other site 666681000166 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 666681000167 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 666681000168 catalytic residues [active] 666681000169 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 666681000170 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 666681000171 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 666681000172 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 666681000173 DsbD alpha interface [polypeptide binding]; other site 666681000174 catalytic residues [active] 666681000175 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 666681000176 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 666681000177 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 666681000178 catalytic loop [active] 666681000179 iron binding site [ion binding]; other site 666681000180 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 666681000181 FAD binding pocket [chemical binding]; other site 666681000182 FAD binding motif [chemical binding]; other site 666681000183 phosphate binding motif [ion binding]; other site 666681000184 beta-alpha-beta structure motif; other site 666681000185 NAD binding pocket [chemical binding]; other site 666681000186 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 666681000187 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 666681000188 Dihaem cytochrome c; Region: DHC; pfam09626 666681000189 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 666681000190 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 666681000191 active site 666681000192 phosphorylation site [posttranslational modification] 666681000193 intermolecular recognition site; other site 666681000194 dimerization interface [polypeptide binding]; other site 666681000195 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 666681000196 DNA binding site [nucleotide binding] 666681000197 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 666681000198 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 666681000199 dimer interface [polypeptide binding]; other site 666681000200 phosphorylation site [posttranslational modification] 666681000201 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 666681000202 ATP binding site [chemical binding]; other site 666681000203 Mg2+ binding site [ion binding]; other site 666681000204 G-X-G motif; other site 666681000205 HAD-superfamily subfamily IIA hydrolase, TIGR01458; Region: HAD-SF-IIA-hyp3 666681000206 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 666681000207 active site 666681000208 motif I; other site 666681000209 motif II; other site 666681000210 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 666681000211 HemY protein N-terminus; Region: HemY_N; pfam07219 666681000212 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 666681000213 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 666681000214 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 666681000215 active site 666681000216 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 666681000217 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 666681000218 domain interfaces; other site 666681000219 active site 666681000220 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 666681000221 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 666681000222 active site 666681000223 phosphorylation site [posttranslational modification] 666681000224 intermolecular recognition site; other site 666681000225 dimerization interface [polypeptide binding]; other site 666681000226 LytTr DNA-binding domain; Region: LytTR; smart00850 666681000227 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 666681000228 Histidine kinase; Region: His_kinase; pfam06580 666681000229 argininosuccinate lyase; Provisional; Region: PRK00855 666681000230 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 666681000231 active sites [active] 666681000232 tetramer interface [polypeptide binding]; other site 666681000233 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 666681000234 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 666681000235 FeS/SAM binding site; other site 666681000236 HemN C-terminal domain; Region: HemN_C; pfam06969 666681000237 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 666681000238 active site 666681000239 dimerization interface [polypeptide binding]; other site 666681000240 ribonuclease PH; Reviewed; Region: rph; PRK00173 666681000241 Ribonuclease PH; Region: RNase_PH_bact; cd11362 666681000242 hexamer interface [polypeptide binding]; other site 666681000243 active site 666681000244 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 666681000245 Protein phosphatase 2C; Region: PP2C; pfam00481 666681000246 active site 666681000247 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 666681000248 Catalytic domain of Protein Kinases; Region: PKc; cd00180 666681000249 active site 666681000250 ATP binding site [chemical binding]; other site 666681000251 substrate binding site [chemical binding]; other site 666681000252 activation loop (A-loop); other site 666681000253 hypothetical protein; Provisional; Region: PRK11820 666681000254 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 666681000255 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 666681000256 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 666681000257 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 666681000258 catalytic site [active] 666681000259 G-X2-G-X-G-K; other site 666681000260 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 666681000261 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 666681000262 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 666681000263 Zn2+ binding site [ion binding]; other site 666681000264 Mg2+ binding site [ion binding]; other site 666681000265 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 666681000266 synthetase active site [active] 666681000267 NTP binding site [chemical binding]; other site 666681000268 metal binding site [ion binding]; metal-binding site 666681000269 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 666681000270 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 666681000271 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 666681000272 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 666681000273 generic binding surface II; other site 666681000274 ssDNA binding site; other site 666681000275 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 666681000276 ATP binding site [chemical binding]; other site 666681000277 putative Mg++ binding site [ion binding]; other site 666681000278 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 666681000279 nucleotide binding region [chemical binding]; other site 666681000280 ATP-binding site [chemical binding]; other site 666681000281 Chorismate lyase; Region: Chor_lyase; cl01230 666681000282 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 666681000283 UbiA prenyltransferase family; Region: UbiA; pfam01040 666681000284 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 666681000285 23S rRNA interface [nucleotide binding]; other site 666681000286 L3 interface [polypeptide binding]; other site 666681000287 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 666681000288 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 666681000289 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 666681000290 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 666681000291 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 666681000292 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 666681000293 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 666681000294 metal-binding site [ion binding] 666681000295 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 666681000296 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 666681000297 dimer interface [polypeptide binding]; other site 666681000298 active site 666681000299 citrylCoA binding site [chemical binding]; other site 666681000300 NADH binding [chemical binding]; other site 666681000301 cationic pore residues; other site 666681000302 oxalacetate/citrate binding site [chemical binding]; other site 666681000303 coenzyme A binding site [chemical binding]; other site 666681000304 catalytic triad [active] 666681000305 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 666681000306 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 666681000307 Peptidase family M23; Region: Peptidase_M23; pfam01551 666681000308 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 666681000309 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 666681000310 active site 666681000311 HIGH motif; other site 666681000312 dimer interface [polypeptide binding]; other site 666681000313 KMSKS motif; other site 666681000314 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 666681000315 RNA binding surface [nucleotide binding]; other site 666681000316 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 666681000317 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 666681000318 Walker A/P-loop; other site 666681000319 ATP binding site [chemical binding]; other site 666681000320 Q-loop/lid; other site 666681000321 ABC transporter signature motif; other site 666681000322 Walker B; other site 666681000323 D-loop; other site 666681000324 H-loop/switch region; other site 666681000325 TOBE-like domain; Region: TOBE_3; pfam12857 666681000326 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 666681000327 dimer interface [polypeptide binding]; other site 666681000328 conserved gate region; other site 666681000329 putative PBP binding loops; other site 666681000330 ABC-ATPase subunit interface; other site 666681000331 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 666681000332 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 666681000333 dimer interface [polypeptide binding]; other site 666681000334 conserved gate region; other site 666681000335 putative PBP binding loops; other site 666681000336 ABC-ATPase subunit interface; other site 666681000337 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 666681000338 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 666681000339 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 666681000340 serine O-acetyltransferase; Region: cysE; TIGR01172 666681000341 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 666681000342 trimer interface [polypeptide binding]; other site 666681000343 active site 666681000344 substrate binding site [chemical binding]; other site 666681000345 CoA binding site [chemical binding]; other site 666681000346 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 666681000347 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 666681000348 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 666681000349 catalytic residue [active] 666681000350 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 666681000351 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 666681000352 dimer interface [polypeptide binding]; other site 666681000353 pyridoxal 5'-phosphate binding site [chemical binding]; other site 666681000354 catalytic residue [active] 666681000355 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 666681000356 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 666681000357 substrate binding pocket [chemical binding]; other site 666681000358 membrane-bound complex binding site; other site 666681000359 hinge residues; other site 666681000360 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 666681000361 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 666681000362 Uncharacterized small protein (DUF2292); Region: DUF2292; pfam10055 666681000363 ribosome maturation protein RimP; Reviewed; Region: PRK00092 666681000364 Sm and related proteins; Region: Sm_like; cl00259 666681000365 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 666681000366 putative oligomer interface [polypeptide binding]; other site 666681000367 putative RNA binding site [nucleotide binding]; other site 666681000368 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 666681000369 NusA N-terminal domain; Region: NusA_N; pfam08529 666681000370 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 666681000371 RNA binding site [nucleotide binding]; other site 666681000372 homodimer interface [polypeptide binding]; other site 666681000373 NusA-like KH domain; Region: KH_5; pfam13184 666681000374 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 666681000375 G-X-X-G motif; other site 666681000376 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 666681000377 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 666681000378 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 666681000379 translation initiation factor IF-2; Region: IF-2; TIGR00487 666681000380 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 666681000381 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 666681000382 G1 box; other site 666681000383 putative GEF interaction site [polypeptide binding]; other site 666681000384 GTP/Mg2+ binding site [chemical binding]; other site 666681000385 Switch I region; other site 666681000386 G2 box; other site 666681000387 G3 box; other site 666681000388 Switch II region; other site 666681000389 G4 box; other site 666681000390 G5 box; other site 666681000391 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 666681000392 Translation-initiation factor 2; Region: IF-2; pfam11987 666681000393 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 666681000394 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 666681000395 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 666681000396 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 666681000397 RNA binding site [nucleotide binding]; other site 666681000398 active site 666681000399 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 666681000400 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 666681000401 16S/18S rRNA binding site [nucleotide binding]; other site 666681000402 S13e-L30e interaction site [polypeptide binding]; other site 666681000403 25S rRNA binding site [nucleotide binding]; other site 666681000404 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 666681000405 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 666681000406 RNase E interface [polypeptide binding]; other site 666681000407 trimer interface [polypeptide binding]; other site 666681000408 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 666681000409 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 666681000410 RNase E interface [polypeptide binding]; other site 666681000411 trimer interface [polypeptide binding]; other site 666681000412 active site 666681000413 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 666681000414 putative nucleic acid binding region [nucleotide binding]; other site 666681000415 G-X-X-G motif; other site 666681000416 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 666681000417 RNA binding site [nucleotide binding]; other site 666681000418 domain interface; other site 666681000419 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 666681000420 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 666681000421 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 666681000422 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 666681000423 homodimer interface [polypeptide binding]; other site 666681000424 NADP binding site [chemical binding]; other site 666681000425 substrate binding site [chemical binding]; other site 666681000426 Lambda integrase, C-terminal catalytic domain. Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They belong to the superfamily...; Region: INT_Lambda_C; cd00800 666681000427 dimer interface [polypeptide binding]; other site 666681000428 active site 666681000429 Int/Topo IB signature motif; other site 666681000430 Domain of unknown function (DUF4224); Region: DUF4224; pfam13986 666681000431 Predicted transcriptional regulator [Transcription]; Region: COG2944 666681000432 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 666681000433 salt bridge; other site 666681000434 non-specific DNA binding site [nucleotide binding]; other site 666681000435 sequence-specific DNA binding site [nucleotide binding]; other site 666681000436 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 666681000437 non-specific DNA binding site [nucleotide binding]; other site 666681000438 salt bridge; other site 666681000439 sequence-specific DNA binding site [nucleotide binding]; other site 666681000440 TIGR04255 family protein; Region: sporadTIGR04255 666681000441 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681000442 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681000443 metal binding site [ion binding]; metal-binding site 666681000444 active site 666681000445 I-site; other site 666681000446 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 666681000447 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 666681000448 active site 666681000449 phosphorylation site [posttranslational modification] 666681000450 intermolecular recognition site; other site 666681000451 dimerization interface [polypeptide binding]; other site 666681000452 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 666681000453 Walker A motif; other site 666681000454 ATP binding site [chemical binding]; other site 666681000455 Walker B motif; other site 666681000456 arginine finger; other site 666681000457 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 666681000458 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 666681000459 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 666681000460 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 666681000461 Tetratricopeptide repeat; Region: TPR_16; pfam13432 666681000462 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 666681000463 binding surface 666681000464 TPR motif; other site 666681000465 TPR repeat; Region: TPR_11; pfam13414 666681000466 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 666681000467 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 666681000468 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 666681000469 Walker A motif; other site 666681000470 ATP binding site [chemical binding]; other site 666681000471 Walker B motif; other site 666681000472 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 666681000473 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 666681000474 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 666681000475 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 666681000476 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 666681000477 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 666681000478 ATP binding site [chemical binding]; other site 666681000479 substrate interface [chemical binding]; other site 666681000480 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 666681000481 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 666681000482 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 666681000483 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 666681000484 LemA family; Region: LemA; cl00742 666681000485 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 666681000486 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 666681000487 HIGH motif; other site 666681000488 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 666681000489 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 666681000490 active site 666681000491 KMSKS motif; other site 666681000492 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 666681000493 tRNA binding surface [nucleotide binding]; other site 666681000494 anticodon binding site; other site 666681000495 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 666681000496 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 666681000497 CPxP motif; other site 666681000498 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 666681000499 active site residue [active] 666681000500 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681000501 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681000502 metal binding site [ion binding]; metal-binding site 666681000503 active site 666681000504 I-site; other site 666681000505 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 666681000506 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 666681000507 putative dimer interface [polypeptide binding]; other site 666681000508 active site pocket [active] 666681000509 putative cataytic base [active] 666681000510 cobalamin synthase; Reviewed; Region: cobS; PRK00235 666681000511 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 666681000512 catalytic core [active] 666681000513 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 666681000514 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 666681000515 pyridoxal 5'-phosphate binding site [chemical binding]; other site 666681000516 homodimer interface [polypeptide binding]; other site 666681000517 catalytic residue [active] 666681000518 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 666681000519 cobyric acid synthase; Provisional; Region: PRK00784 666681000520 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 666681000521 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 666681000522 catalytic triad [active] 666681000523 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 666681000524 Catalytic domain of Protein Kinases; Region: PKc; cd00180 666681000525 active site 666681000526 ATP binding site [chemical binding]; other site 666681000527 substrate binding site [chemical binding]; other site 666681000528 activation loop (A-loop); other site 666681000529 HDOD domain; Region: HDOD; pfam08668 666681000530 GAF domain; Region: GAF_3; pfam13492 666681000531 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 666681000532 homotrimer interface [polypeptide binding]; other site 666681000533 Walker A motif; other site 666681000534 GTP binding site [chemical binding]; other site 666681000535 Walker B motif; other site 666681000536 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 666681000537 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 666681000538 cobalamin binding residues [chemical binding]; other site 666681000539 putative BtuC binding residues; other site 666681000540 dimer interface [polypeptide binding]; other site 666681000541 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 666681000542 putative FMN binding site [chemical binding]; other site 666681000543 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 666681000544 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 666681000545 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 666681000546 catalytic triad [active] 666681000547 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; cl17276 666681000548 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 666681000549 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 666681000550 homodimer interface [polypeptide binding]; other site 666681000551 Walker A motif; other site 666681000552 ATP binding site [chemical binding]; other site 666681000553 hydroxycobalamin binding site [chemical binding]; other site 666681000554 Walker B motif; other site 666681000555 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 666681000556 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 666681000557 N-terminal plug; other site 666681000558 ligand-binding site [chemical binding]; other site 666681000559 Cell division protein ZapA; Region: ZapA; pfam05164 666681000560 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 666681000561 EVE domain; Region: EVE; cl00728 666681000562 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 666681000563 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 666681000564 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 666681000565 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; cl02567 666681000566 threonine dehydratase; Reviewed; Region: PRK09224 666681000567 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 666681000568 tetramer interface [polypeptide binding]; other site 666681000569 pyridoxal 5'-phosphate binding site [chemical binding]; other site 666681000570 catalytic residue [active] 666681000571 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 666681000572 putative Ile/Val binding site [chemical binding]; other site 666681000573 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 666681000574 putative Ile/Val binding site [chemical binding]; other site 666681000575 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 666681000576 tetramer (dimer of dimers) interface [polypeptide binding]; other site 666681000577 active site 666681000578 dimer interface [polypeptide binding]; other site 666681000579 oxidative damage protection protein; Provisional; Region: PRK05408 666681000580 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 666681000581 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 666681000582 PAS domain; Region: PAS_9; pfam13426 666681000583 putative active site [active] 666681000584 heme pocket [chemical binding]; other site 666681000585 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681000586 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681000587 metal binding site [ion binding]; metal-binding site 666681000588 active site 666681000589 I-site; other site 666681000590 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 666681000591 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 666681000592 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 666681000593 dimerization interface [polypeptide binding]; other site 666681000594 putative DNA binding site [nucleotide binding]; other site 666681000595 putative Zn2+ binding site [ion binding]; other site 666681000596 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 666681000597 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 666681000598 active site 666681000599 FMN binding site [chemical binding]; other site 666681000600 substrate binding site [chemical binding]; other site 666681000601 homotetramer interface [polypeptide binding]; other site 666681000602 catalytic residue [active] 666681000603 short chain dehydrogenase; Provisional; Region: PRK07478 666681000604 classical (c) SDRs; Region: SDR_c; cd05233 666681000605 NAD(P) binding site [chemical binding]; other site 666681000606 active site 666681000607 Transcriptional regulator [Transcription]; Region: LysR; COG0583 666681000608 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 666681000609 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 666681000610 putative effector binding pocket; other site 666681000611 dimerization interface [polypeptide binding]; other site 666681000612 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 666681000613 Transcriptional regulator [Transcription]; Region: LysR; COG0583 666681000614 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 666681000615 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 666681000616 putative effector binding pocket; other site 666681000617 dimerization interface [polypeptide binding]; other site 666681000618 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 666681000619 superoxide dismutase; Provisional; Region: PRK10543 666681000620 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 666681000621 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 666681000622 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 666681000623 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 666681000624 active site 666681000625 DNA binding site [nucleotide binding] 666681000626 Int/Topo IB signature motif; other site 666681000627 Protein of unknown function, DUF484; Region: DUF484; cl17449 666681000628 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 666681000629 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 666681000630 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 666681000631 S-adenosylmethionine synthetase; Validated; Region: PRK05250 666681000632 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 666681000633 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 666681000634 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 666681000635 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 666681000636 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 666681000637 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 666681000638 Zn2+ binding site [ion binding]; other site 666681000639 Mg2+ binding site [ion binding]; other site 666681000640 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 666681000641 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 666681000642 homotetramer interface [polypeptide binding]; other site 666681000643 ligand binding site [chemical binding]; other site 666681000644 catalytic site [active] 666681000645 NAD binding site [chemical binding]; other site 666681000646 Membrane protein of unknown function; Region: DUF360; pfam04020 666681000647 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 666681000648 FAD binding site [chemical binding]; other site 666681000649 Protein of unknown function (DUF494); Region: DUF494; pfam04361 666681000650 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 666681000651 DNA protecting protein DprA; Region: dprA; TIGR00732 666681000652 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 666681000653 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 666681000654 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 666681000655 active site 666681000656 catalytic residues [active] 666681000657 metal binding site [ion binding]; metal-binding site 666681000658 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 666681000659 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 666681000660 putative active site [active] 666681000661 substrate binding site [chemical binding]; other site 666681000662 putative cosubstrate binding site; other site 666681000663 catalytic site [active] 666681000664 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 666681000665 substrate binding site [chemical binding]; other site 666681000666 M48 family peptidase; Provisional; Region: PRK03001 666681000667 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 666681000668 active site 2 [active] 666681000669 active site 1 [active] 666681000670 16S rRNA methyltransferase B; Provisional; Region: PRK10901 666681000671 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 666681000672 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 666681000673 S-adenosylmethionine binding site [chemical binding]; other site 666681000674 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 666681000675 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 666681000676 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 666681000677 dimerization interface [polypeptide binding]; other site 666681000678 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 666681000679 dimer interface [polypeptide binding]; other site 666681000680 phosphorylation site [posttranslational modification] 666681000681 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 666681000682 ATP binding site [chemical binding]; other site 666681000683 Mg2+ binding site [ion binding]; other site 666681000684 G-X-G motif; other site 666681000685 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 666681000686 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 666681000687 active site 666681000688 phosphorylation site [posttranslational modification] 666681000689 intermolecular recognition site; other site 666681000690 dimerization interface [polypeptide binding]; other site 666681000691 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 666681000692 Walker A motif; other site 666681000693 ATP binding site [chemical binding]; other site 666681000694 Walker B motif; other site 666681000695 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 666681000696 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 666681000697 putative catalytic site [active] 666681000698 putative phosphate binding site [ion binding]; other site 666681000699 active site 666681000700 metal binding site A [ion binding]; metal-binding site 666681000701 DNA binding site [nucleotide binding] 666681000702 putative AP binding site [nucleotide binding]; other site 666681000703 putative metal binding site B [ion binding]; other site 666681000704 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 666681000705 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 666681000706 motif II; other site 666681000707 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 666681000708 HPP family; Region: HPP; pfam04982 666681000709 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 666681000710 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 666681000711 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 666681000712 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 666681000713 active site 666681000714 Zn binding site [ion binding]; other site 666681000715 Tic20-like protein; Region: Tic20; pfam09685 666681000716 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 666681000717 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 666681000718 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 666681000719 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 666681000720 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 666681000721 dimerization domain swap beta strand [polypeptide binding]; other site 666681000722 regulatory protein interface [polypeptide binding]; other site 666681000723 active site 666681000724 regulatory phosphorylation site [posttranslational modification]; other site 666681000725 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 666681000726 active pocket/dimerization site; other site 666681000727 active site 666681000728 phosphorylation site [posttranslational modification] 666681000729 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 666681000730 AAA domain; Region: AAA_18; pfam13238 666681000731 HPr kinase/phosphorylase; Provisional; Region: PRK05428 666681000732 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 666681000733 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 666681000734 Hpr binding site; other site 666681000735 active site 666681000736 homohexamer subunit interaction site [polypeptide binding]; other site 666681000737 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 666681000738 30S subunit binding site; other site 666681000739 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 666681000740 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 666681000741 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 666681000742 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 666681000743 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 666681000744 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 666681000745 Walker A/P-loop; other site 666681000746 ATP binding site [chemical binding]; other site 666681000747 Q-loop/lid; other site 666681000748 ABC transporter signature motif; other site 666681000749 Walker B; other site 666681000750 D-loop; other site 666681000751 H-loop/switch region; other site 666681000752 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 666681000753 OstA-like protein; Region: OstA; pfam03968 666681000754 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 666681000755 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 666681000756 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 666681000757 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 666681000758 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 666681000759 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 666681000760 putative active site [active] 666681000761 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 666681000762 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 666681000763 putative cation:proton antiport protein; Provisional; Region: PRK10669 666681000764 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 666681000765 TrkA-N domain; Region: TrkA_N; pfam02254 666681000766 TrkA-C domain; Region: TrkA_C; pfam02080 666681000767 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 666681000768 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 666681000769 trimer interface [polypeptide binding]; other site 666681000770 dimer interface [polypeptide binding]; other site 666681000771 putative active site [active] 666681000772 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 666681000773 Peptidase family M48; Region: Peptidase_M48; pfam01435 666681000774 Predicted secreted protein [Function unknown]; Region: COG5501 666681000775 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 666681000776 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 666681000777 peroxiredoxin; Region: AhpC; TIGR03137 666681000778 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 666681000779 dimer interface [polypeptide binding]; other site 666681000780 decamer (pentamer of dimers) interface [polypeptide binding]; other site 666681000781 catalytic triad [active] 666681000782 peroxidatic and resolving cysteines [active] 666681000783 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 666681000784 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 666681000785 catalytic residue [active] 666681000786 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 666681000787 catalytic residues [active] 666681000788 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 666681000789 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 666681000790 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 666681000791 putative active site [active] 666681000792 catalytic site [active] 666681000793 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 666681000794 PLD-like domain; Region: PLDc_2; pfam13091 666681000795 putative active site [active] 666681000796 catalytic site [active] 666681000797 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 666681000798 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 666681000799 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 666681000800 Domain of unknown function DUF21; Region: DUF21; pfam01595 666681000801 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 666681000802 Transporter associated domain; Region: CorC_HlyC; smart01091 666681000803 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 666681000804 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 666681000805 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 666681000806 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 666681000807 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 666681000808 dimerization interface [polypeptide binding]; other site 666681000809 putative ATP binding site [chemical binding]; other site 666681000810 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 666681000811 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 666681000812 16S rRNA methyltransferase B; Provisional; Region: PRK14902 666681000813 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 666681000814 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 666681000815 S-adenosylmethionine binding site [chemical binding]; other site 666681000816 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 666681000817 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 666681000818 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 666681000819 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 666681000820 putative ADP-binding pocket [chemical binding]; other site 666681000821 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 666681000822 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 666681000823 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; cd01610 666681000824 active site 666681000825 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 666681000826 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 666681000827 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 666681000828 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 666681000829 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 666681000830 Coenzyme A binding pocket [chemical binding]; other site 666681000831 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 666681000832 EamA-like transporter family; Region: EamA; pfam00892 666681000833 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 666681000834 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 666681000835 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 666681000836 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 666681000837 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 666681000838 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 666681000839 amidase catalytic site [active] 666681000840 Zn binding residues [ion binding]; other site 666681000841 substrate binding site [chemical binding]; other site 666681000842 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 666681000843 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 666681000844 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 666681000845 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 666681000846 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 666681000847 active site 666681000848 phosphorylation site [posttranslational modification] 666681000849 intermolecular recognition site; other site 666681000850 dimerization interface [polypeptide binding]; other site 666681000851 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 666681000852 Walker A motif; other site 666681000853 ATP binding site [chemical binding]; other site 666681000854 Walker B motif; other site 666681000855 arginine finger; other site 666681000856 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 666681000857 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 666681000858 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 666681000859 dimer interface [polypeptide binding]; other site 666681000860 phosphorylation site [posttranslational modification] 666681000861 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 666681000862 ATP binding site [chemical binding]; other site 666681000863 Mg2+ binding site [ion binding]; other site 666681000864 G-X-G motif; other site 666681000865 RNA polymerase factor sigma-70; Validated; Region: PRK09047 666681000866 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 666681000867 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 666681000868 DNA binding residues [nucleotide binding] 666681000869 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 666681000870 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 666681000871 RDD family; Region: RDD; pfam06271 666681000872 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 666681000873 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 666681000874 Predicted permeases [General function prediction only]; Region: COG0795 666681000875 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 666681000876 multifunctional aminopeptidase A; Provisional; Region: PRK00913 666681000877 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 666681000878 interface (dimer of trimers) [polypeptide binding]; other site 666681000879 Substrate-binding/catalytic site; other site 666681000880 Zn-binding sites [ion binding]; other site 666681000881 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 666681000882 Polycystin cation channel protein; Provisional; Region: PLN03223 666681000883 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 666681000884 lipoyl attachment site [posttranslational modification]; other site 666681000885 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 666681000886 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 666681000887 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 666681000888 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 666681000889 active site 666681000890 interdomain interaction site; other site 666681000891 putative metal-binding site [ion binding]; other site 666681000892 nucleotide binding site [chemical binding]; other site 666681000893 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 666681000894 domain I; other site 666681000895 DNA binding groove [nucleotide binding] 666681000896 phosphate binding site [ion binding]; other site 666681000897 domain II; other site 666681000898 domain III; other site 666681000899 nucleotide binding site [chemical binding]; other site 666681000900 catalytic site [active] 666681000901 domain IV; other site 666681000902 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 666681000903 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 666681000904 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 666681000905 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 666681000906 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 666681000907 Ligand Binding Site [chemical binding]; other site 666681000908 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681000909 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681000910 metal binding site [ion binding]; metal-binding site 666681000911 active site 666681000912 I-site; other site 666681000913 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 666681000914 pteridine reductase; Provisional; Region: PRK09135 666681000915 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 666681000916 NADP binding site [chemical binding]; other site 666681000917 substrate binding pocket [chemical binding]; other site 666681000918 active site 666681000919 Uncharacterized conserved protein [Function unknown]; Region: COG1565 666681000920 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 666681000921 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 666681000922 G1 box; other site 666681000923 GTP/Mg2+ binding site [chemical binding]; other site 666681000924 Switch I region; other site 666681000925 G2 box; other site 666681000926 G3 box; other site 666681000927 Switch II region; other site 666681000928 G4 box; other site 666681000929 G5 box; other site 666681000930 Cytochrome c553 [Energy production and conversion]; Region: COG2863 666681000931 Cytochrome c; Region: Cytochrom_C; pfam00034 666681000932 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 666681000933 ATP binding site [chemical binding]; other site 666681000934 Mg2+ binding site [ion binding]; other site 666681000935 G-X-G motif; other site 666681000936 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 666681000937 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 666681000938 Walker A/P-loop; other site 666681000939 ATP binding site [chemical binding]; other site 666681000940 Q-loop/lid; other site 666681000941 ABC transporter signature motif; other site 666681000942 Walker B; other site 666681000943 D-loop; other site 666681000944 H-loop/switch region; other site 666681000945 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 666681000946 Permease; Region: Permease; pfam02405 666681000947 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 666681000948 mce related protein; Region: MCE; pfam02470 666681000949 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 666681000950 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 666681000951 anti sigma factor interaction site; other site 666681000952 regulatory phosphorylation site [posttranslational modification]; other site 666681000953 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 666681000954 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 666681000955 Walker A/P-loop; other site 666681000956 ATP binding site [chemical binding]; other site 666681000957 Q-loop/lid; other site 666681000958 ABC transporter signature motif; other site 666681000959 Walker B; other site 666681000960 D-loop; other site 666681000961 H-loop/switch region; other site 666681000962 ABC-2 type transporter; Region: ABC2_membrane; cl17235 666681000963 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 666681000964 BolA-like protein; Region: BolA; pfam01722 666681000965 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 666681000966 putative GSH binding site [chemical binding]; other site 666681000967 catalytic residues [active] 666681000968 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 666681000969 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 666681000970 hinge; other site 666681000971 active site 666681000972 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 666681000973 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 666681000974 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 666681000975 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 666681000976 NAD binding site [chemical binding]; other site 666681000977 dimerization interface [polypeptide binding]; other site 666681000978 product binding site; other site 666681000979 substrate binding site [chemical binding]; other site 666681000980 zinc binding site [ion binding]; other site 666681000981 catalytic residues [active] 666681000982 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 666681000983 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 666681000984 pyridoxal 5'-phosphate binding site [chemical binding]; other site 666681000985 homodimer interface [polypeptide binding]; other site 666681000986 catalytic residue [active] 666681000987 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 666681000988 active site 666681000989 dimer interface [polypeptide binding]; other site 666681000990 magnesium binding site [ion binding]; other site 666681000991 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 666681000992 putative active site pocket [active] 666681000993 4-fold oligomerization interface [polypeptide binding]; other site 666681000994 metal binding residues [ion binding]; metal-binding site 666681000995 3-fold/trimer interface [polypeptide binding]; other site 666681000996 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 666681000997 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 666681000998 putative active site [active] 666681000999 oxyanion strand; other site 666681001000 catalytic triad [active] 666681001001 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 666681001002 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 666681001003 catalytic residues [active] 666681001004 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 666681001005 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 666681001006 substrate binding site [chemical binding]; other site 666681001007 glutamase interaction surface [polypeptide binding]; other site 666681001008 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 666681001009 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 666681001010 metal binding site [ion binding]; metal-binding site 666681001011 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 666681001012 nucleotide binding site/active site [active] 666681001013 HIT family signature motif; other site 666681001014 catalytic residue [active] 666681001015 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 666681001016 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 666681001017 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 666681001018 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 666681001019 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 666681001020 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 666681001021 protein binding site [polypeptide binding]; other site 666681001022 Uncharacterized conserved protein [Function unknown]; Region: COG0327 666681001023 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 666681001024 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 666681001025 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 666681001026 [2Fe-2S] cluster binding site [ion binding]; other site 666681001027 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 666681001028 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; cd00284 666681001029 Qi binding site; other site 666681001030 intrachain domain interface; other site 666681001031 interchain domain interface [polypeptide binding]; other site 666681001032 heme bH binding site [chemical binding]; other site 666681001033 heme bL binding site [chemical binding]; other site 666681001034 Qo binding site; other site 666681001035 interchain domain interface [polypeptide binding]; other site 666681001036 intrachain domain interface; other site 666681001037 Qi binding site; other site 666681001038 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 666681001039 Qo binding site; other site 666681001040 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 666681001041 stringent starvation protein A; Provisional; Region: sspA; PRK09481 666681001042 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 666681001043 C-terminal domain interface [polypeptide binding]; other site 666681001044 putative GSH binding site (G-site) [chemical binding]; other site 666681001045 dimer interface [polypeptide binding]; other site 666681001046 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 666681001047 dimer interface [polypeptide binding]; other site 666681001048 N-terminal domain interface [polypeptide binding]; other site 666681001049 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 666681001050 elongation factor Tu; Reviewed; Region: PRK00049 666681001051 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 666681001052 G1 box; other site 666681001053 GEF interaction site [polypeptide binding]; other site 666681001054 GTP/Mg2+ binding site [chemical binding]; other site 666681001055 Switch I region; other site 666681001056 G2 box; other site 666681001057 G3 box; other site 666681001058 Switch II region; other site 666681001059 G4 box; other site 666681001060 G5 box; other site 666681001061 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 666681001062 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 666681001063 Antibiotic Binding Site [chemical binding]; other site 666681001064 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 666681001065 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 666681001066 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 666681001067 putative homodimer interface [polypeptide binding]; other site 666681001068 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 666681001069 heterodimer interface [polypeptide binding]; other site 666681001070 homodimer interface [polypeptide binding]; other site 666681001071 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 666681001072 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 666681001073 23S rRNA interface [nucleotide binding]; other site 666681001074 L7/L12 interface [polypeptide binding]; other site 666681001075 putative thiostrepton binding site; other site 666681001076 L25 interface [polypeptide binding]; other site 666681001077 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 666681001078 mRNA/rRNA interface [nucleotide binding]; other site 666681001079 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 666681001080 23S rRNA interface [nucleotide binding]; other site 666681001081 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 666681001082 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 666681001083 core dimer interface [polypeptide binding]; other site 666681001084 peripheral dimer interface [polypeptide binding]; other site 666681001085 L10 interface [polypeptide binding]; other site 666681001086 L11 interface [polypeptide binding]; other site 666681001087 putative EF-Tu interaction site [polypeptide binding]; other site 666681001088 putative EF-G interaction site [polypeptide binding]; other site 666681001089 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 666681001090 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 666681001091 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 666681001092 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 666681001093 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 666681001094 RPB3 interaction site [polypeptide binding]; other site 666681001095 RPB1 interaction site [polypeptide binding]; other site 666681001096 RPB11 interaction site [polypeptide binding]; other site 666681001097 RPB10 interaction site [polypeptide binding]; other site 666681001098 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 666681001099 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 666681001100 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 666681001101 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 666681001102 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 666681001103 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 666681001104 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 666681001105 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 666681001106 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 666681001107 DNA binding site [nucleotide binding] 666681001108 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 666681001109 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 666681001110 S17 interaction site [polypeptide binding]; other site 666681001111 S8 interaction site; other site 666681001112 16S rRNA interaction site [nucleotide binding]; other site 666681001113 streptomycin interaction site [chemical binding]; other site 666681001114 23S rRNA interaction site [nucleotide binding]; other site 666681001115 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 666681001116 30S ribosomal protein S7; Validated; Region: PRK05302 666681001117 elongation factor G; Reviewed; Region: PRK00007 666681001118 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 666681001119 G1 box; other site 666681001120 putative GEF interaction site [polypeptide binding]; other site 666681001121 GTP/Mg2+ binding site [chemical binding]; other site 666681001122 Switch I region; other site 666681001123 G2 box; other site 666681001124 G3 box; other site 666681001125 Switch II region; other site 666681001126 G4 box; other site 666681001127 G5 box; other site 666681001128 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 666681001129 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 666681001130 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 666681001131 elongation factor Tu; Reviewed; Region: PRK00049 666681001132 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 666681001133 G1 box; other site 666681001134 GEF interaction site [polypeptide binding]; other site 666681001135 GTP/Mg2+ binding site [chemical binding]; other site 666681001136 Switch I region; other site 666681001137 G2 box; other site 666681001138 G3 box; other site 666681001139 Switch II region; other site 666681001140 G4 box; other site 666681001141 G5 box; other site 666681001142 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 666681001143 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 666681001144 Antibiotic Binding Site [chemical binding]; other site 666681001145 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 666681001146 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 666681001147 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 666681001148 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 666681001149 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 666681001150 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 666681001151 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 666681001152 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 666681001153 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 666681001154 putative translocon binding site; other site 666681001155 protein-rRNA interface [nucleotide binding]; other site 666681001156 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 666681001157 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 666681001158 G-X-X-G motif; other site 666681001159 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 666681001160 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 666681001161 23S rRNA interface [nucleotide binding]; other site 666681001162 5S rRNA interface [nucleotide binding]; other site 666681001163 putative antibiotic binding site [chemical binding]; other site 666681001164 L25 interface [polypeptide binding]; other site 666681001165 L27 interface [polypeptide binding]; other site 666681001166 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 666681001167 23S rRNA interface [nucleotide binding]; other site 666681001168 putative translocon interaction site; other site 666681001169 signal recognition particle (SRP54) interaction site; other site 666681001170 L23 interface [polypeptide binding]; other site 666681001171 trigger factor interaction site; other site 666681001172 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 666681001173 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 666681001174 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 666681001175 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 666681001176 RNA binding site [nucleotide binding]; other site 666681001177 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 666681001178 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 666681001179 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 666681001180 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 666681001181 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 666681001182 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 666681001183 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 666681001184 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 666681001185 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 666681001186 5S rRNA interface [nucleotide binding]; other site 666681001187 23S rRNA interface [nucleotide binding]; other site 666681001188 L5 interface [polypeptide binding]; other site 666681001189 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 666681001190 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 666681001191 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 666681001192 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 666681001193 23S rRNA binding site [nucleotide binding]; other site 666681001194 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 666681001195 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 666681001196 SecY translocase; Region: SecY; pfam00344 666681001197 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 666681001198 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 666681001199 30S ribosomal protein S13; Region: bact_S13; TIGR03631 666681001200 30S ribosomal protein S11; Validated; Region: PRK05309 666681001201 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 666681001202 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 666681001203 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 666681001204 RNA binding surface [nucleotide binding]; other site 666681001205 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 666681001206 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 666681001207 alphaNTD homodimer interface [polypeptide binding]; other site 666681001208 alphaNTD - beta interaction site [polypeptide binding]; other site 666681001209 alphaNTD - beta' interaction site [polypeptide binding]; other site 666681001210 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 666681001211 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 666681001212 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 666681001213 MgtE intracellular N domain; Region: MgtE_N; cl15244 666681001214 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 666681001215 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 666681001216 Cl binding site [ion binding]; other site 666681001217 oligomer interface [polypeptide binding]; other site 666681001218 Mechanosensitive ion channel; Region: MS_channel; pfam00924 666681001219 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 666681001220 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 666681001221 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 666681001222 trimer interface [polypeptide binding]; other site 666681001223 active site 666681001224 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 666681001225 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 666681001226 N-terminal plug; other site 666681001227 ligand-binding site [chemical binding]; other site 666681001228 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 666681001229 Flavoprotein; Region: Flavoprotein; pfam02441 666681001230 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 666681001231 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 666681001232 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 666681001233 hypothetical protein; Reviewed; Region: PRK00024 666681001234 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 666681001235 MPN+ (JAMM) motif; other site 666681001236 Zinc-binding site [ion binding]; other site 666681001237 Predicted membrane protein [Function unknown]; Region: COG3174 666681001238 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 666681001239 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 666681001240 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 666681001241 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 666681001242 Walker A/P-loop; other site 666681001243 ATP binding site [chemical binding]; other site 666681001244 Q-loop/lid; other site 666681001245 ABC transporter signature motif; other site 666681001246 Walker B; other site 666681001247 D-loop; other site 666681001248 H-loop/switch region; other site 666681001249 carbon starvation protein A; Provisional; Region: PRK15015 666681001250 Carbon starvation protein CstA; Region: CstA; pfam02554 666681001251 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 666681001252 Protein of unknown function (DUF466); Region: DUF466; cl01082 666681001253 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 666681001254 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 666681001255 PAS fold; Region: PAS_4; pfam08448 666681001256 PAS fold; Region: PAS_4; pfam08448 666681001257 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 666681001258 putative active site [active] 666681001259 heme pocket [chemical binding]; other site 666681001260 PAS fold; Region: PAS_4; pfam08448 666681001261 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681001262 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681001263 metal binding site [ion binding]; metal-binding site 666681001264 active site 666681001265 I-site; other site 666681001266 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 666681001267 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 666681001268 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 666681001269 active site 666681001270 phosphate binding residues; other site 666681001271 catalytic residues [active] 666681001272 Cytochrome c; Region: Cytochrom_C; cl11414 666681001273 amino acid transporter; Region: 2A0306; TIGR00909 666681001274 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 666681001275 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 666681001276 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 666681001277 active site 666681001278 metal binding site [ion binding]; metal-binding site 666681001279 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 666681001280 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 666681001281 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 666681001282 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 666681001283 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 666681001284 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 666681001285 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 666681001286 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 666681001287 purine monophosphate binding site [chemical binding]; other site 666681001288 dimer interface [polypeptide binding]; other site 666681001289 putative catalytic residues [active] 666681001290 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 666681001291 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 666681001292 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 666681001293 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 666681001294 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 666681001295 FMN binding site [chemical binding]; other site 666681001296 active site 666681001297 catalytic residues [active] 666681001298 substrate binding site [chemical binding]; other site 666681001299 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 666681001300 metabolite-proton symporter; Region: 2A0106; TIGR00883 666681001301 putative substrate translocation pore; other site 666681001302 Flagellin N-methylase; Region: FliB; cl00497 666681001303 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 666681001304 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 666681001305 putative MPT binding site; other site 666681001306 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681001307 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681001308 metal binding site [ion binding]; metal-binding site 666681001309 active site 666681001310 I-site; other site 666681001311 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 666681001312 GIY-YIG motif/motif A; other site 666681001313 putative active site [active] 666681001314 putative metal binding site [ion binding]; other site 666681001315 DNA polymerase I; Provisional; Region: PRK05755 666681001316 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 666681001317 active site 666681001318 metal binding site 1 [ion binding]; metal-binding site 666681001319 putative 5' ssDNA interaction site; other site 666681001320 metal binding site 3; metal-binding site 666681001321 metal binding site 2 [ion binding]; metal-binding site 666681001322 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 666681001323 putative DNA binding site [nucleotide binding]; other site 666681001324 putative metal binding site [ion binding]; other site 666681001325 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 666681001326 active site 666681001327 catalytic site [active] 666681001328 substrate binding site [chemical binding]; other site 666681001329 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 666681001330 active site 666681001331 DNA binding site [nucleotide binding] 666681001332 catalytic site [active] 666681001333 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 666681001334 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 666681001335 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 666681001336 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 666681001337 putative active site [active] 666681001338 putative substrate binding site [chemical binding]; other site 666681001339 ATP binding site [chemical binding]; other site 666681001340 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 666681001341 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 666681001342 Part of AAA domain; Region: AAA_19; pfam13245 666681001343 Family description; Region: UvrD_C_2; pfam13538 666681001344 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 666681001345 GAF domain; Region: GAF; pfam01590 666681001346 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 666681001347 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 666681001348 putative active site [active] 666681001349 heme pocket [chemical binding]; other site 666681001350 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 666681001351 putative active site [active] 666681001352 heme pocket [chemical binding]; other site 666681001353 GAF domain; Region: GAF; cl17456 666681001354 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 666681001355 PAS fold; Region: PAS_3; pfam08447 666681001356 putative active site [active] 666681001357 heme pocket [chemical binding]; other site 666681001358 PAS fold; Region: PAS_3; pfam08447 666681001359 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681001360 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681001361 metal binding site [ion binding]; metal-binding site 666681001362 active site 666681001363 I-site; other site 666681001364 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 666681001365 GAF domain; Region: GAF; pfam01590 666681001366 PAS domain S-box; Region: sensory_box; TIGR00229 666681001367 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 666681001368 putative active site [active] 666681001369 heme pocket [chemical binding]; other site 666681001370 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 666681001371 PAS domain; Region: PAS_9; pfam13426 666681001372 putative active site [active] 666681001373 heme pocket [chemical binding]; other site 666681001374 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681001375 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681001376 metal binding site [ion binding]; metal-binding site 666681001377 active site 666681001378 I-site; other site 666681001379 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 666681001380 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 666681001381 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 666681001382 N-terminal plug; other site 666681001383 ligand-binding site [chemical binding]; other site 666681001384 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 666681001385 dimerization interface [polypeptide binding]; other site 666681001386 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681001387 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681001388 metal binding site [ion binding]; metal-binding site 666681001389 active site 666681001390 I-site; other site 666681001391 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 666681001392 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 666681001393 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 666681001394 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 666681001395 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 666681001396 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 666681001397 ring oligomerisation interface [polypeptide binding]; other site 666681001398 ATP/Mg binding site [chemical binding]; other site 666681001399 stacking interactions; other site 666681001400 hinge regions; other site 666681001401 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 666681001402 oligomerisation interface [polypeptide binding]; other site 666681001403 mobile loop; other site 666681001404 roof hairpin; other site 666681001405 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 666681001406 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 666681001407 active site 666681001408 catalytic tetrad [active] 666681001409 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 666681001410 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 666681001411 PhnA protein; Region: PhnA; pfam03831 666681001412 Phospholipase A1; Region: PLA1; pfam02253 666681001413 substrate binding site [chemical binding]; other site 666681001414 dimerization interface [polypeptide binding]; other site 666681001415 active site 666681001416 calcium binding site [ion binding]; other site 666681001417 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 666681001418 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 666681001419 Peptidase family U32; Region: Peptidase_U32; pfam01136 666681001420 Collagenase; Region: DUF3656; pfam12392 666681001421 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 666681001422 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 666681001423 inhibitor-cofactor binding pocket; inhibition site 666681001424 pyridoxal 5'-phosphate binding site [chemical binding]; other site 666681001425 catalytic residue [active] 666681001426 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 666681001427 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 666681001428 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 666681001429 OsmC-like protein; Region: OsmC; cl00767 666681001430 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 666681001431 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 666681001432 active site 666681001433 metal binding site [ion binding]; metal-binding site 666681001434 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 666681001435 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 666681001436 diiron binding motif [ion binding]; other site 666681001437 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 666681001438 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 666681001439 Cysteine-rich domain; Region: CCG; pfam02754 666681001440 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 666681001441 C-terminal peptidase (prc); Region: prc; TIGR00225 666681001442 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 666681001443 protein binding site [polypeptide binding]; other site 666681001444 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 666681001445 Catalytic dyad [active] 666681001446 Rdx family; Region: Rdx; cl01407 666681001447 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 666681001448 NlpC/P60 family; Region: NLPC_P60; pfam00877 666681001449 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 666681001450 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 666681001451 DEAD_2; Region: DEAD_2; pfam06733 666681001452 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 666681001453 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 666681001454 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 666681001455 catalytic residues [active] 666681001456 Ferredoxin [Energy production and conversion]; Region: COG1146 666681001457 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 666681001458 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 666681001459 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 666681001460 NAD(P) binding site [chemical binding]; other site 666681001461 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 666681001462 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 666681001463 heme-binding residues [chemical binding]; other site 666681001464 chaperone protein DnaJ; Provisional; Region: PRK10767 666681001465 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 666681001466 Tetratricopeptide repeat; Region: TPR_16; pfam13432 666681001467 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 666681001468 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 666681001469 Walker A/P-loop; other site 666681001470 ATP binding site [chemical binding]; other site 666681001471 Q-loop/lid; other site 666681001472 ABC transporter signature motif; other site 666681001473 Walker B; other site 666681001474 D-loop; other site 666681001475 H-loop/switch region; other site 666681001476 heme exporter protein CcmB; Region: ccmB; TIGR01190 666681001477 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 666681001478 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 666681001479 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 666681001480 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 666681001481 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 666681001482 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 666681001483 catalytic residues [active] 666681001484 central insert; other site 666681001485 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 666681001486 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 666681001487 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 666681001488 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 666681001489 binding surface 666681001490 TPR motif; other site 666681001491 aminopeptidase N; Provisional; Region: pepN; PRK14015 666681001492 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 666681001493 active site 666681001494 Zn binding site [ion binding]; other site 666681001495 putative cation:proton antiport protein; Provisional; Region: PRK10669 666681001496 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 666681001497 TrkA-N domain; Region: TrkA_N; pfam02254 666681001498 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 666681001499 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 666681001500 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 666681001501 dimer interface [polypeptide binding]; other site 666681001502 phosphorylation site [posttranslational modification] 666681001503 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 666681001504 ATP binding site [chemical binding]; other site 666681001505 Mg2+ binding site [ion binding]; other site 666681001506 G-X-G motif; other site 666681001507 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 666681001508 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 666681001509 active site 666681001510 phosphorylation site [posttranslational modification] 666681001511 intermolecular recognition site; other site 666681001512 dimerization interface [polypeptide binding]; other site 666681001513 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 666681001514 DNA binding site [nucleotide binding] 666681001515 Outer membrane efflux protein; Region: OEP; pfam02321 666681001516 Outer membrane efflux protein; Region: OEP; pfam02321 666681001517 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 666681001518 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 666681001519 HlyD family secretion protein; Region: HlyD_3; pfam13437 666681001520 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 666681001521 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 666681001522 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 666681001523 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 666681001524 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 666681001525 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 666681001526 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 666681001527 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 666681001528 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 666681001529 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 666681001530 Walker A motif; other site 666681001531 ATP binding site [chemical binding]; other site 666681001532 Walker B motif; other site 666681001533 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 666681001534 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 666681001535 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 666681001536 Secretin and TonB N terminus short domain; Region: STN; smart00965 666681001537 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 666681001538 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 666681001539 Cohesin domain, interaction parter of dockerin; Region: cohesin_like; cd08546 666681001540 dockerin binding interface; other site 666681001541 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 666681001542 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 666681001543 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 666681001544 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 666681001545 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 666681001546 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 666681001547 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 666681001548 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 666681001549 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 666681001550 active site 666681001551 phosphorylation site [posttranslational modification] 666681001552 intermolecular recognition site; other site 666681001553 dimerization interface [polypeptide binding]; other site 666681001554 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 666681001555 DNA binding residues [nucleotide binding] 666681001556 dimerization interface [polypeptide binding]; other site 666681001557 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 666681001558 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 666681001559 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 666681001560 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 666681001561 Multicopper oxidase; Region: Cu-oxidase; pfam00394 666681001562 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 666681001563 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 666681001564 Cu(I) binding site [ion binding]; other site 666681001565 Response regulator receiver domain; Region: Response_reg; pfam00072 666681001566 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 666681001567 active site 666681001568 phosphorylation site [posttranslational modification] 666681001569 intermolecular recognition site; other site 666681001570 dimerization interface [polypeptide binding]; other site 666681001571 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 666681001572 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 666681001573 N-acetyl-D-glucosamine binding site [chemical binding]; other site 666681001574 catalytic residue [active] 666681001575 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 666681001576 PAS domain; Region: PAS_9; pfam13426 666681001577 putative active site [active] 666681001578 heme pocket [chemical binding]; other site 666681001579 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 666681001580 PAS domain; Region: PAS_9; pfam13426 666681001581 putative active site [active] 666681001582 heme pocket [chemical binding]; other site 666681001583 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 666681001584 Histidine kinase; Region: HisKA_3; pfam07730 666681001585 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 666681001586 ATP binding site [chemical binding]; other site 666681001587 Mg2+ binding site [ion binding]; other site 666681001588 G-X-G motif; other site 666681001589 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 666681001590 dimerization interface [polypeptide binding]; other site 666681001591 putative DNA binding site [nucleotide binding]; other site 666681001592 putative Zn2+ binding site [ion binding]; other site 666681001593 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_20; cd07254 666681001594 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 666681001595 putative metal binding site [ion binding]; other site 666681001596 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 666681001597 Sodium Bile acid symporter family; Region: SBF; cl17470 666681001598 Low molecular weight phosphatase family; Region: LMWPc; cd00115 666681001599 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 666681001600 active site 666681001601 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 666681001602 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 666681001603 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 666681001604 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 666681001605 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 666681001606 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 666681001607 active site 666681001608 metal binding site [ion binding]; metal-binding site 666681001609 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 666681001610 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 666681001611 putative acyl-acceptor binding pocket; other site 666681001612 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 666681001613 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 666681001614 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 666681001615 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 666681001616 substrate binding site [chemical binding]; other site 666681001617 ATP binding site [chemical binding]; other site 666681001618 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 666681001619 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 666681001620 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 666681001621 putative hydrophobic ligand binding site [chemical binding]; other site 666681001622 protein interface [polypeptide binding]; other site 666681001623 gate; other site 666681001624 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 666681001625 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 666681001626 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 666681001627 catalytic residues [active] 666681001628 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 666681001629 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 666681001630 FAD binding domain; Region: FAD_binding_4; pfam01565 666681001631 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 666681001632 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 666681001633 Cysteine-rich domain; Region: CCG; pfam02754 666681001634 Cysteine-rich domain; Region: CCG; pfam02754 666681001635 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 666681001636 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 666681001637 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 666681001638 ligand binding site [chemical binding]; other site 666681001639 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 666681001640 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 666681001641 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 666681001642 dimer interface [polypeptide binding]; other site 666681001643 phosphorylation site [posttranslational modification] 666681001644 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 666681001645 ATP binding site [chemical binding]; other site 666681001646 Mg2+ binding site [ion binding]; other site 666681001647 G-X-G motif; other site 666681001648 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 666681001649 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 666681001650 active site 666681001651 phosphorylation site [posttranslational modification] 666681001652 intermolecular recognition site; other site 666681001653 dimerization interface [polypeptide binding]; other site 666681001654 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 666681001655 DNA binding site [nucleotide binding] 666681001656 Major Facilitator Superfamily; Region: MFS_1; pfam07690 666681001657 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 666681001658 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 666681001659 homopentamer interface [polypeptide binding]; other site 666681001660 active site 666681001661 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 666681001662 putative RNA binding site [nucleotide binding]; other site 666681001663 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 666681001664 Protein phosphatase 2C; Region: PP2C; pfam00481 666681001665 active site 666681001666 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 666681001667 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 666681001668 phosphopeptide binding site; other site 666681001669 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 666681001670 GAF domain; Region: GAF; pfam01590 666681001671 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 666681001672 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 666681001673 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 666681001674 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 666681001675 putative active site [active] 666681001676 putative metal binding site [ion binding]; other site 666681001677 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 666681001678 active site 666681001679 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 666681001680 active site 666681001681 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 666681001682 TPR repeat; Region: TPR_11; pfam13414 666681001683 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 666681001684 binding surface 666681001685 TPR motif; other site 666681001686 Tetratricopeptide repeat; Region: TPR_12; pfam13424 666681001687 SnoaL-like domain; Region: SnoaL_3; pfam13474 666681001688 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 666681001689 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 666681001690 active site 666681001691 HIGH motif; other site 666681001692 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 666681001693 KMSKS motif; other site 666681001694 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 666681001695 tRNA binding surface [nucleotide binding]; other site 666681001696 anticodon binding site; other site 666681001697 TPR repeat; Region: TPR_11; pfam13414 666681001698 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 666681001699 binding surface 666681001700 TPR motif; other site 666681001701 TPR repeat; Region: TPR_11; pfam13414 666681001702 Response regulator receiver domain; Region: Response_reg; pfam00072 666681001703 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 666681001704 active site 666681001705 phosphorylation site [posttranslational modification] 666681001706 intermolecular recognition site; other site 666681001707 dimerization interface [polypeptide binding]; other site 666681001708 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681001709 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681001710 metal binding site [ion binding]; metal-binding site 666681001711 active site 666681001712 I-site; other site 666681001713 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 666681001714 heterotetramer interface [polypeptide binding]; other site 666681001715 active site pocket [active] 666681001716 cleavage site 666681001717 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 666681001718 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 666681001719 Walker A motif; other site 666681001720 ATP binding site [chemical binding]; other site 666681001721 Walker B motif; other site 666681001722 hypothetical protein; Provisional; Region: PRK08999 666681001723 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 666681001724 active site 666681001725 8-oxo-dGMP binding site [chemical binding]; other site 666681001726 nudix motif; other site 666681001727 metal binding site [ion binding]; metal-binding site 666681001728 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 666681001729 thiamine phosphate binding site [chemical binding]; other site 666681001730 active site 666681001731 pyrophosphate binding site [ion binding]; other site 666681001732 Protein of unknown function (DUF461); Region: DUF461; pfam04314 666681001733 Domain of unknown function (DUF329); Region: DUF329; pfam03884 666681001734 hypothetical protein; Provisional; Region: PRK05287 666681001735 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 666681001736 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 666681001737 CoA-binding site [chemical binding]; other site 666681001738 ATP-binding [chemical binding]; other site 666681001739 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 666681001740 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 666681001741 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 666681001742 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 666681001743 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 666681001744 substrate binding pocket [chemical binding]; other site 666681001745 chain length determination region; other site 666681001746 substrate-Mg2+ binding site; other site 666681001747 catalytic residues [active] 666681001748 aspartate-rich region 1; other site 666681001749 active site lid residues [active] 666681001750 aspartate-rich region 2; other site 666681001751 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 666681001752 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 666681001753 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 666681001754 GTPase CgtA; Reviewed; Region: obgE; PRK12299 666681001755 GTP1/OBG; Region: GTP1_OBG; pfam01018 666681001756 Obg GTPase; Region: Obg; cd01898 666681001757 G1 box; other site 666681001758 GTP/Mg2+ binding site [chemical binding]; other site 666681001759 Switch I region; other site 666681001760 G2 box; other site 666681001761 G3 box; other site 666681001762 Switch II region; other site 666681001763 G4 box; other site 666681001764 G5 box; other site 666681001765 gamma-glutamyl kinase; Provisional; Region: PRK05429 666681001766 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 666681001767 nucleotide binding site [chemical binding]; other site 666681001768 homotetrameric interface [polypeptide binding]; other site 666681001769 putative phosphate binding site [ion binding]; other site 666681001770 putative allosteric binding site; other site 666681001771 PUA domain; Region: PUA; pfam01472 666681001772 AIR carboxylase; Region: AIRC; pfam00731 666681001773 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 666681001774 ATP-grasp domain; Region: ATP-grasp; pfam02222 666681001775 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 666681001776 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 666681001777 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 666681001778 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 666681001779 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 666681001780 active site 666681001781 Riboflavin kinase; Region: Flavokinase; smart00904 666681001782 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 666681001783 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 666681001784 active site 666681001785 HIGH motif; other site 666681001786 nucleotide binding site [chemical binding]; other site 666681001787 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 666681001788 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 666681001789 active site 666681001790 KMSKS motif; other site 666681001791 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 666681001792 tRNA binding surface [nucleotide binding]; other site 666681001793 anticodon binding site; other site 666681001794 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 666681001795 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 666681001796 lipoprotein signal peptidase; Provisional; Region: PRK14787 666681001797 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 666681001798 Response regulator receiver domain; Region: Response_reg; pfam00072 666681001799 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 666681001800 active site 666681001801 phosphorylation site [posttranslational modification] 666681001802 intermolecular recognition site; other site 666681001803 dimerization interface [polypeptide binding]; other site 666681001804 PAS domain; Region: PAS_9; pfam13426 666681001805 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 666681001806 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681001807 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681001808 metal binding site [ion binding]; metal-binding site 666681001809 active site 666681001810 I-site; other site 666681001811 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 666681001812 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 666681001813 Response regulator receiver domain; Region: Response_reg; pfam00072 666681001814 active site 666681001815 phosphorylation site [posttranslational modification] 666681001816 intermolecular recognition site; other site 666681001817 dimerization interface [polypeptide binding]; other site 666681001818 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 666681001819 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 666681001820 substrate binding pocket [chemical binding]; other site 666681001821 membrane-bound complex binding site; other site 666681001822 hinge residues; other site 666681001823 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 666681001824 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 666681001825 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 666681001826 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 666681001827 putative active site [active] 666681001828 heme pocket [chemical binding]; other site 666681001829 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 666681001830 dimer interface [polypeptide binding]; other site 666681001831 phosphorylation site [posttranslational modification] 666681001832 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 666681001833 ATP binding site [chemical binding]; other site 666681001834 Mg2+ binding site [ion binding]; other site 666681001835 G-X-G motif; other site 666681001836 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 666681001837 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 666681001838 HSP70 interaction site [polypeptide binding]; other site 666681001839 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 666681001840 substrate binding site [polypeptide binding]; other site 666681001841 dimer interface [polypeptide binding]; other site 666681001842 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 666681001843 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 666681001844 Protein of unknown function (DUF808); Region: DUF808; pfam05661 666681001845 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 666681001846 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 666681001847 active site 666681001848 phosphorylation site [posttranslational modification] 666681001849 intermolecular recognition site; other site 666681001850 dimerization interface [polypeptide binding]; other site 666681001851 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 666681001852 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 666681001853 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 666681001854 dimer interface [polypeptide binding]; other site 666681001855 phosphorylation site [posttranslational modification] 666681001856 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 666681001857 ATP binding site [chemical binding]; other site 666681001858 Mg2+ binding site [ion binding]; other site 666681001859 G-X-G motif; other site 666681001860 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 666681001861 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 666681001862 N-terminal plug; other site 666681001863 ligand-binding site [chemical binding]; other site 666681001864 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 666681001865 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 666681001866 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 666681001867 Zn2+ binding site [ion binding]; other site 666681001868 Mg2+ binding site [ion binding]; other site 666681001869 PAS fold; Region: PAS_4; pfam08448 666681001870 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 666681001871 GAF domain; Region: GAF; cl17456 666681001872 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 666681001873 PAS domain; Region: PAS_9; pfam13426 666681001874 putative active site [active] 666681001875 heme pocket [chemical binding]; other site 666681001876 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681001877 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681001878 metal binding site [ion binding]; metal-binding site 666681001879 active site 666681001880 I-site; other site 666681001881 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 666681001882 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 666681001883 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 666681001884 catalytic residues [active] 666681001885 BNR repeat-like domain; Region: BNR_2; pfam13088 666681001886 Family description; Region: DsbD_2; pfam13386 666681001887 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 666681001888 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 666681001889 metal-binding site [ion binding] 666681001890 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 666681001891 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 666681001892 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 666681001893 Clp amino terminal domain; Region: Clp_N; pfam02861 666681001894 Clp amino terminal domain; Region: Clp_N; pfam02861 666681001895 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 666681001896 Walker A motif; other site 666681001897 ATP binding site [chemical binding]; other site 666681001898 Walker B motif; other site 666681001899 arginine finger; other site 666681001900 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 666681001901 Walker A motif; other site 666681001902 ATP binding site [chemical binding]; other site 666681001903 Walker B motif; other site 666681001904 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 666681001905 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 666681001906 Sel1-like repeats; Region: SEL1; smart00671 666681001907 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 666681001908 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 666681001909 N-acetyl-D-glucosamine binding site [chemical binding]; other site 666681001910 catalytic residue [active] 666681001911 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; cl00338 666681001912 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 666681001913 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 666681001914 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 666681001915 BON domain; Region: BON; pfam04972 666681001916 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 666681001917 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 666681001918 Peptidase family M23; Region: Peptidase_M23; pfam01551 666681001919 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 666681001920 phosphoglyceromutase; Provisional; Region: PRK05434 666681001921 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 666681001922 active site residue [active] 666681001923 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 666681001924 GSH binding site [chemical binding]; other site 666681001925 catalytic residues [active] 666681001926 preprotein translocase subunit SecB; Validated; Region: PRK05751 666681001927 SecA binding site; other site 666681001928 Preprotein binding site; other site 666681001929 Bacterial SH3 domain; Region: SH3_4; pfam06347 666681001930 Bacterial SH3 domain; Region: SH3_4; pfam06347 666681001931 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 666681001932 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 666681001933 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 666681001934 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 666681001935 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 666681001936 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 666681001937 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 666681001938 active site 666681001939 biotin synthase; Region: bioB; TIGR00433 666681001940 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 666681001941 FeS/SAM binding site; other site 666681001942 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 666681001943 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 666681001944 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 666681001945 substrate-cofactor binding pocket; other site 666681001946 pyridoxal 5'-phosphate binding site [chemical binding]; other site 666681001947 catalytic residue [active] 666681001948 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 666681001949 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 666681001950 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 666681001951 S-adenosylmethionine binding site [chemical binding]; other site 666681001952 AAA domain; Region: AAA_26; pfam13500 666681001953 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 666681001954 Peptidase family M48; Region: Peptidase_M48; pfam01435 666681001955 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 666681001956 TPR repeat; Region: TPR_11; pfam13414 666681001957 binding surface 666681001958 TPR motif; other site 666681001959 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 666681001960 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 666681001961 active site 666681001962 (T/H)XGH motif; other site 666681001963 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 666681001964 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 666681001965 putative catalytic cysteine [active] 666681001966 hypothetical protein; Provisional; Region: PRK10318 666681001967 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 666681001968 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 666681001969 Lipopolysaccharide-assembly; Region: LptE; cl01125 666681001970 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 666681001971 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 666681001972 HIGH motif; other site 666681001973 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 666681001974 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 666681001975 active site 666681001976 KMSKS motif; other site 666681001977 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 666681001978 tRNA binding surface [nucleotide binding]; other site 666681001979 adenylate kinase; Reviewed; Region: adk; PRK00279 666681001980 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 666681001981 AMP-binding site [chemical binding]; other site 666681001982 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 666681001983 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 666681001984 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 666681001985 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 666681001986 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 666681001987 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 666681001988 SurA N-terminal domain; Region: SurA_N; pfam09312 666681001989 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 666681001990 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 666681001991 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 666681001992 Organic solvent tolerance protein; Region: OstA_C; pfam04453 666681001993 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 666681001994 Phosphotransferase enzyme family; Region: APH; pfam01636 666681001995 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 666681001996 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 666681001997 Substrate binding site; other site 666681001998 metal-binding site 666681001999 proline aminopeptidase P II; Provisional; Region: PRK10879 666681002000 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 666681002001 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 666681002002 active site 666681002003 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 666681002004 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 666681002005 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 666681002006 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 666681002007 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 666681002008 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 666681002009 dimerization domain [polypeptide binding]; other site 666681002010 dimer interface [polypeptide binding]; other site 666681002011 catalytic residues [active] 666681002012 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 666681002013 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 666681002014 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 666681002015 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 666681002016 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 666681002017 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 666681002018 Walker A motif; other site 666681002019 ATP binding site [chemical binding]; other site 666681002020 Walker B motif; other site 666681002021 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 666681002022 DNA-binding site [nucleotide binding]; DNA binding site 666681002023 RNA-binding motif; other site 666681002024 isocitrate dehydrogenase; Validated; Region: PRK07362 666681002025 isocitrate dehydrogenase; Reviewed; Region: PRK07006 666681002026 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 666681002027 pseudouridine synthase; Region: TIGR00093 666681002028 active site 666681002029 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 666681002030 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 666681002031 catalytic triad [active] 666681002032 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 666681002033 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 666681002034 Tetramer interface [polypeptide binding]; other site 666681002035 active site 666681002036 FMN-binding site [chemical binding]; other site 666681002037 Protein of unknown function (DUF465); Region: DUF465; cl01070 666681002038 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 666681002039 Major Facilitator Superfamily; Region: MFS_1; pfam07690 666681002040 putative substrate translocation pore; other site 666681002041 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 666681002042 catalytic motif [active] 666681002043 Catalytic residue [active] 666681002044 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 666681002045 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 666681002046 active site 666681002047 phosphorylation site [posttranslational modification] 666681002048 intermolecular recognition site; other site 666681002049 dimerization interface [polypeptide binding]; other site 666681002050 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 666681002051 DNA binding site [nucleotide binding] 666681002052 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 666681002053 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 666681002054 dimer interface [polypeptide binding]; other site 666681002055 phosphorylation site [posttranslational modification] 666681002056 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 666681002057 ATP binding site [chemical binding]; other site 666681002058 G-X-G motif; other site 666681002059 putative GTP cyclohydrolase; Provisional; Region: PRK13674 666681002060 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 666681002061 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 666681002062 TPP-binding site; other site 666681002063 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 666681002064 PYR/PP interface [polypeptide binding]; other site 666681002065 dimer interface [polypeptide binding]; other site 666681002066 TPP binding site [chemical binding]; other site 666681002067 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 666681002068 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 666681002069 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 666681002070 substrate binding pocket [chemical binding]; other site 666681002071 chain length determination region; other site 666681002072 substrate-Mg2+ binding site; other site 666681002073 catalytic residues [active] 666681002074 aspartate-rich region 1; other site 666681002075 active site lid residues [active] 666681002076 aspartate-rich region 2; other site 666681002077 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 666681002078 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 666681002079 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 666681002080 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 666681002081 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 666681002082 ligand binding site [chemical binding]; other site 666681002083 flexible hinge region; other site 666681002084 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 666681002085 active site residue [active] 666681002086 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 666681002087 putative major pilin subunit; Provisional; Region: PRK10574 666681002088 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 666681002089 putative hydrophobic ligand binding site [chemical binding]; other site 666681002090 protein interface [polypeptide binding]; other site 666681002091 gate; other site 666681002092 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 666681002093 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 666681002094 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 666681002095 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 666681002096 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 666681002097 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 666681002098 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 666681002099 putative active site [active] 666681002100 Ap4A binding site [chemical binding]; other site 666681002101 nudix motif; other site 666681002102 putative metal binding site [ion binding]; other site 666681002103 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 666681002104 ketol-acid reductoisomerase; Provisional; Region: PRK05479 666681002105 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 666681002106 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 666681002107 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 666681002108 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 666681002109 putative valine binding site [chemical binding]; other site 666681002110 dimer interface [polypeptide binding]; other site 666681002111 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 666681002112 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 666681002113 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 666681002114 PYR/PP interface [polypeptide binding]; other site 666681002115 dimer interface [polypeptide binding]; other site 666681002116 TPP binding site [chemical binding]; other site 666681002117 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 666681002118 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 666681002119 TPP-binding site [chemical binding]; other site 666681002120 dimer interface [polypeptide binding]; other site 666681002121 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 666681002122 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 666681002123 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 666681002124 Walker A motif; other site 666681002125 ATP binding site [chemical binding]; other site 666681002126 Walker B motif; other site 666681002127 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 666681002128 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 666681002129 dimerization interface [polypeptide binding]; other site 666681002130 active site 666681002131 putative glutathione S-transferase; Provisional; Region: PRK10357 666681002132 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 666681002133 putative C-terminal domain interface [polypeptide binding]; other site 666681002134 putative GSH binding site (G-site) [chemical binding]; other site 666681002135 putative dimer interface [polypeptide binding]; other site 666681002136 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 666681002137 dimer interface [polypeptide binding]; other site 666681002138 N-terminal domain interface [polypeptide binding]; other site 666681002139 putative substrate binding pocket (H-site) [chemical binding]; other site 666681002140 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 666681002141 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]; Region: COG4700 666681002142 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 666681002143 hypothetical protein; Provisional; Region: PRK11239 666681002144 Protein of unknown function, DUF480; Region: DUF480; pfam04337 666681002145 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 666681002146 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 666681002147 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 666681002148 nudix motif; other site 666681002149 Maf-like protein; Region: Maf; pfam02545 666681002150 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 666681002151 active site 666681002152 dimer interface [polypeptide binding]; other site 666681002153 ribonuclease G; Provisional; Region: PRK11712 666681002154 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 666681002155 homodimer interface [polypeptide binding]; other site 666681002156 oligonucleotide binding site [chemical binding]; other site 666681002157 Dynamin family; Region: Dynamin_N; pfam00350 666681002158 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 666681002159 G1 box; other site 666681002160 GTP/Mg2+ binding site [chemical binding]; other site 666681002161 G2 box; other site 666681002162 Switch I region; other site 666681002163 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 666681002164 G3 box; other site 666681002165 Switch II region; other site 666681002166 GTP/Mg2+ binding site [chemical binding]; other site 666681002167 G4 box; other site 666681002168 G5 box; other site 666681002169 YGGT family; Region: YGGT; pfam02325 666681002170 YGGT family; Region: YGGT; pfam02325 666681002171 pyrroline-5-carboxylate reductase; Region: PLN02688 666681002172 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 666681002173 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 666681002174 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 666681002175 catalytic residue [active] 666681002176 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 666681002177 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 666681002178 Walker A motif; other site 666681002179 ATP binding site [chemical binding]; other site 666681002180 Walker B motif; other site 666681002181 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 666681002182 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 666681002183 Walker A motif; other site 666681002184 ATP binding site [chemical binding]; other site 666681002185 Walker B motif; other site 666681002186 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 666681002187 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 666681002188 ligand binding site [chemical binding]; other site 666681002189 Uncharacterized conserved protein [Function unknown]; Region: COG3743 666681002190 dihydroorotase; Provisional; Region: PRK07627 666681002191 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 666681002192 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 666681002193 active site 666681002194 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 666681002195 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 666681002196 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 666681002197 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 666681002198 active site 666681002199 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 666681002200 hypothetical protein; Validated; Region: PRK00228 666681002201 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 666681002202 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 666681002203 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 666681002204 dimerization interface [polypeptide binding]; other site 666681002205 active site 666681002206 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 666681002207 Lumazine binding domain; Region: Lum_binding; pfam00677 666681002208 Lumazine binding domain; Region: Lum_binding; pfam00677 666681002209 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681002210 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681002211 metal binding site [ion binding]; metal-binding site 666681002212 active site 666681002213 I-site; other site 666681002214 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 666681002215 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 666681002216 FtsX-like permease family; Region: FtsX; pfam02687 666681002217 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 666681002218 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 666681002219 Walker A/P-loop; other site 666681002220 ATP binding site [chemical binding]; other site 666681002221 Q-loop/lid; other site 666681002222 ABC transporter signature motif; other site 666681002223 Walker B; other site 666681002224 D-loop; other site 666681002225 H-loop/switch region; other site 666681002226 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 666681002227 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 666681002228 Competence protein; Region: Competence; pfam03772 666681002229 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 666681002230 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 666681002231 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 666681002232 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 666681002233 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 666681002234 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 666681002235 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 666681002236 Walker A/P-loop; other site 666681002237 ATP binding site [chemical binding]; other site 666681002238 Q-loop/lid; other site 666681002239 ABC transporter signature motif; other site 666681002240 Walker B; other site 666681002241 D-loop; other site 666681002242 H-loop/switch region; other site 666681002243 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 666681002244 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 666681002245 Uncharacterized conserved protein [Function unknown]; Region: COG2835 666681002246 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 666681002247 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 666681002248 Ligand binding site; other site 666681002249 oligomer interface; other site 666681002250 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 666681002251 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 666681002252 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; cd00092 666681002253 non-specific DNA interactions [nucleotide binding]; other site 666681002254 DNA binding site [nucleotide binding] 666681002255 sequence specific DNA binding site [nucleotide binding]; other site 666681002256 putative cAMP binding site [chemical binding]; other site 666681002257 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 666681002258 interface (dimer of trimers) [polypeptide binding]; other site 666681002259 Substrate-binding/catalytic site; other site 666681002260 Zn-binding sites [ion binding]; other site 666681002261 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 666681002262 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 666681002263 dimer interface [polypeptide binding]; other site 666681002264 TPP-binding site [chemical binding]; other site 666681002265 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 666681002266 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 666681002267 E3 interaction surface; other site 666681002268 lipoyl attachment site [posttranslational modification]; other site 666681002269 e3 binding domain; Region: E3_binding; pfam02817 666681002270 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 666681002271 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 666681002272 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 666681002273 NAD(P) binding site [chemical binding]; other site 666681002274 active site 666681002275 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 666681002276 putative DNA binding site [nucleotide binding]; other site 666681002277 dimerization interface [polypeptide binding]; other site 666681002278 putative Zn2+ binding site [ion binding]; other site 666681002279 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 666681002280 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 666681002281 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 666681002282 TPR motif; other site 666681002283 binding surface 666681002284 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 666681002285 Transglycosylase; Region: Transgly; pfam00912 666681002286 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 666681002287 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 666681002288 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like; cl17506 666681002289 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 666681002290 MG2 domain; Region: A2M_N; pfam01835 666681002291 Alpha-2-macroglobulin family; Region: A2M; pfam00207 666681002292 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 666681002293 surface patch; other site 666681002294 thioester region; other site 666681002295 specificity defining residues; other site 666681002296 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 666681002297 E3 interaction surface; other site 666681002298 lipoyl attachment site [posttranslational modification]; other site 666681002299 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 666681002300 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 666681002301 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 666681002302 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 666681002303 FAD binding domain; Region: FAD_binding_4; pfam01565 666681002304 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 666681002305 Male accessory gland secretory protein; Region: MAGSP; pfam03082 666681002306 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 666681002307 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 666681002308 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 666681002309 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 666681002310 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 666681002311 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 666681002312 Family of unknown function (DUF490); Region: DUF490; pfam04357 666681002313 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 666681002314 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 666681002315 Surface antigen; Region: Bac_surface_Ag; pfam01103 666681002316 adenylosuccinate lyase; Provisional; Region: PRK09285 666681002317 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 666681002318 tetramer interface [polypeptide binding]; other site 666681002319 active site 666681002320 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 666681002321 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 666681002322 active site 666681002323 phosphorylation site [posttranslational modification] 666681002324 intermolecular recognition site; other site 666681002325 dimerization interface [polypeptide binding]; other site 666681002326 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 666681002327 Zn2+ binding site [ion binding]; other site 666681002328 Mg2+ binding site [ion binding]; other site 666681002329 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 666681002330 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 666681002331 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 666681002332 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 666681002333 putative active site [active] 666681002334 heme pocket [chemical binding]; other site 666681002335 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 666681002336 putative active site [active] 666681002337 heme pocket [chemical binding]; other site 666681002338 PAS domain; Region: PAS_9; pfam13426 666681002339 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 666681002340 putative active site [active] 666681002341 heme pocket [chemical binding]; other site 666681002342 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 666681002343 dimer interface [polypeptide binding]; other site 666681002344 phosphorylation site [posttranslational modification] 666681002345 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 666681002346 ATP binding site [chemical binding]; other site 666681002347 Mg2+ binding site [ion binding]; other site 666681002348 G-X-G motif; other site 666681002349 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 666681002350 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 666681002351 active site 666681002352 phosphorylation site [posttranslational modification] 666681002353 intermolecular recognition site; other site 666681002354 dimerization interface [polypeptide binding]; other site 666681002355 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; cl00086 666681002356 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 666681002357 2-methylcitrate dehydratase; Region: prpD; TIGR02330 666681002358 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 666681002359 methylcitrate synthase; Provisional; Region: PRK12351 666681002360 oxalacetate binding site [chemical binding]; other site 666681002361 citrylCoA binding site [chemical binding]; other site 666681002362 coenzyme A binding site [chemical binding]; other site 666681002363 catalytic triad [active] 666681002364 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 666681002365 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 666681002366 tetramer interface [polypeptide binding]; other site 666681002367 active site 666681002368 Mg2+/Mn2+ binding site [ion binding]; other site 666681002369 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 666681002370 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 666681002371 putative active site [active] 666681002372 putative catalytic site [active] 666681002373 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 666681002374 putative active site [active] 666681002375 putative catalytic site [active] 666681002376 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 666681002377 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 666681002378 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 666681002379 DNA-binding site [nucleotide binding]; DNA binding site 666681002380 UTRA domain; Region: UTRA; pfam07702 666681002381 Malic enzyme, N-terminal domain; Region: malic; pfam00390 666681002382 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 666681002383 putative NAD(P) binding site [chemical binding]; other site 666681002384 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 666681002385 Iron-sulfur protein interface; other site 666681002386 proximal quinone binding site [chemical binding]; other site 666681002387 SdhD (CybS) interface [polypeptide binding]; other site 666681002388 proximal heme binding site [chemical binding]; other site 666681002389 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 666681002390 SdhC subunit interface [polypeptide binding]; other site 666681002391 proximal heme binding site [chemical binding]; other site 666681002392 cardiolipin binding site; other site 666681002393 Iron-sulfur protein interface; other site 666681002394 proximal quinone binding site [chemical binding]; other site 666681002395 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 666681002396 L-aspartate oxidase; Provisional; Region: PRK06175 666681002397 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 666681002398 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 666681002399 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 666681002400 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 666681002401 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 666681002402 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 666681002403 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 666681002404 acyl-activating enzyme (AAE) consensus motif; other site 666681002405 AMP binding site [chemical binding]; other site 666681002406 active site 666681002407 CoA binding site [chemical binding]; other site 666681002408 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 666681002409 Fumarase C-terminus; Region: Fumerase_C; pfam05683 666681002410 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 666681002411 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 666681002412 substrate binding site [chemical binding]; other site 666681002413 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 666681002414 substrate binding site [chemical binding]; other site 666681002415 ligand binding site [chemical binding]; other site 666681002416 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 666681002417 hypothetical protein; Provisional; Region: PRK05208 666681002418 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 666681002419 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 666681002420 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 666681002421 active site 1 [active] 666681002422 dimer interface [polypeptide binding]; other site 666681002423 hexamer interface [polypeptide binding]; other site 666681002424 active site 2 [active] 666681002425 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 666681002426 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 666681002427 ATP binding site [chemical binding]; other site 666681002428 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 666681002429 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 666681002430 GIY-YIG motif/motif A; other site 666681002431 active site 666681002432 catalytic site [active] 666681002433 putative DNA binding site [nucleotide binding]; other site 666681002434 metal binding site [ion binding]; metal-binding site 666681002435 UvrB/uvrC motif; Region: UVR; pfam02151 666681002436 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 666681002437 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 666681002438 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 666681002439 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 666681002440 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 666681002441 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 666681002442 Walker A/P-loop; other site 666681002443 ATP binding site [chemical binding]; other site 666681002444 Q-loop/lid; other site 666681002445 ABC transporter signature motif; other site 666681002446 Walker B; other site 666681002447 D-loop; other site 666681002448 H-loop/switch region; other site 666681002449 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 666681002450 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 666681002451 E3 interaction surface; other site 666681002452 lipoyl attachment site [posttranslational modification]; other site 666681002453 HlyD family secretion protein; Region: HlyD_3; pfam13437 666681002454 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 666681002455 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 666681002456 DNA binding residues [nucleotide binding] 666681002457 dimerization interface [polypeptide binding]; other site 666681002458 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681002459 metal binding site [ion binding]; metal-binding site 666681002460 active site 666681002461 I-site; other site 666681002462 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 666681002463 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 666681002464 Calx-beta domain; Region: Calx-beta; pfam03160 666681002465 VCBS repeat; Region: VCBS_repeat; TIGR01965 666681002466 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 666681002467 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 666681002468 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 666681002469 metal ion-dependent adhesion site (MIDAS); other site 666681002470 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 666681002471 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 666681002472 UDP-glucose 4-epimerase; Region: PLN02240 666681002473 NAD binding site [chemical binding]; other site 666681002474 homodimer interface [polypeptide binding]; other site 666681002475 active site 666681002476 substrate binding site [chemical binding]; other site 666681002477 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 666681002478 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_6; cd04955 666681002479 PEP-CTERM motif; Region: VPEP; pfam07589 666681002480 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 666681002481 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 666681002482 active site 666681002483 Substrate binding site; other site 666681002484 Mg++ binding site; other site 666681002485 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 666681002486 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 666681002487 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 666681002488 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 666681002489 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 666681002490 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 666681002491 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 666681002492 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 666681002493 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 666681002494 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 666681002495 Walker A motif; other site 666681002496 ATP binding site [chemical binding]; other site 666681002497 Walker B motif; other site 666681002498 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 666681002499 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 666681002500 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 666681002501 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 666681002502 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 666681002503 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 666681002504 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 666681002505 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 666681002506 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 666681002507 N-acetyl-D-glucosamine binding site [chemical binding]; other site 666681002508 catalytic residue [active] 666681002509 transcriptional regulator EpsA; Region: EpsA; TIGR03020 666681002510 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 666681002511 DNA binding residues [nucleotide binding] 666681002512 dimerization interface [polypeptide binding]; other site 666681002513 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 666681002514 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 666681002515 Surface antigen; Region: Bac_surface_Ag; pfam01103 666681002516 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 666681002517 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 666681002518 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 666681002519 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 666681002520 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 666681002521 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 666681002522 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 666681002523 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 666681002524 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 666681002525 Gram-negative bacterial tonB protein; Region: TonB; cl10048 666681002526 V-type ATP synthase subunit I; Validated; Region: PRK05771 666681002527 CAAX protease self-immunity; Region: Abi; cl00558 666681002528 exopolysaccharide biosynthesis operon protein EpsL; Region: EpsL; TIGR03014 666681002529 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 666681002530 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 666681002531 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 666681002532 SLBB domain; Region: SLBB; pfam10531 666681002533 SLBB domain; Region: SLBB; pfam10531 666681002534 SLBB domain; Region: SLBB; pfam10531 666681002535 chain length determinant protein EpsF; Region: EpsF; TIGR03017 666681002536 Chain length determinant protein; Region: Wzz; pfam02706 666681002537 chain length determinant protein tyrosine kinase EpsG; Region: EpsG; TIGR03029 666681002538 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 666681002539 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 666681002540 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 666681002541 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 666681002542 Protein of unknown function (DUF3485); Region: DUF3485; pfam11984 666681002543 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 666681002544 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 666681002545 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 666681002546 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 666681002547 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 666681002548 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 666681002549 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 666681002550 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 666681002551 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 666681002552 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 666681002553 active site 666681002554 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 666681002555 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 666681002556 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 666681002557 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 666681002558 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 666681002559 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 666681002560 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; cl15837 666681002561 dimer interface [polypeptide binding]; other site 666681002562 active site 666681002563 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; cl15837 666681002564 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 666681002565 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 666681002566 ligand binding site [chemical binding]; other site 666681002567 flexible hinge region; other site 666681002568 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 666681002569 non-specific DNA interactions [nucleotide binding]; other site 666681002570 DNA binding site [nucleotide binding] 666681002571 sequence specific DNA binding site [nucleotide binding]; other site 666681002572 putative cAMP binding site [chemical binding]; other site 666681002573 Predicted transcriptional regulator [Transcription]; Region: COG1959 666681002574 Transcriptional regulator; Region: Rrf2; cl17282 666681002575 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 666681002576 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 666681002577 heme-binding site [chemical binding]; other site 666681002578 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 666681002579 FAD binding pocket [chemical binding]; other site 666681002580 FAD binding motif [chemical binding]; other site 666681002581 phosphate binding motif [ion binding]; other site 666681002582 beta-alpha-beta structure motif; other site 666681002583 NAD binding pocket [chemical binding]; other site 666681002584 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 666681002585 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 666681002586 Heavy-metal resistance; Region: Metal_resist; pfam13801 666681002587 dimer interface [polypeptide binding]; other site 666681002588 RNA polymerase sigma factor; Reviewed; Region: PRK05602 666681002589 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 666681002590 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 666681002591 DNA binding residues [nucleotide binding] 666681002592 heat shock protein 90; Provisional; Region: PRK05218 666681002593 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 666681002594 ATP binding site [chemical binding]; other site 666681002595 Mg2+ binding site [ion binding]; other site 666681002596 G-X-G motif; other site 666681002597 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 666681002598 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 666681002599 putative NAD(P) binding site [chemical binding]; other site 666681002600 short chain dehydrogenase; Provisional; Region: PRK06179 666681002601 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 666681002602 NADP binding site [chemical binding]; other site 666681002603 active site 666681002604 steroid binding site; other site 666681002605 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 666681002606 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 666681002607 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 666681002608 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 666681002609 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 666681002610 RNA binding surface [nucleotide binding]; other site 666681002611 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 666681002612 homodimer interface [polypeptide binding]; other site 666681002613 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 666681002614 active site pocket [active] 666681002615 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 666681002616 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 666681002617 Serine hydrolase (FSH1); Region: FSH1; pfam03959 666681002618 Autotransporter beta-domain; Region: Autotransporter; smart00869 666681002619 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 666681002620 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 666681002621 dimerization interface [polypeptide binding]; other site 666681002622 ATP binding site [chemical binding]; other site 666681002623 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 666681002624 dimerization interface [polypeptide binding]; other site 666681002625 ATP binding site [chemical binding]; other site 666681002626 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 666681002627 putative active site [active] 666681002628 catalytic triad [active] 666681002629 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 666681002630 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 666681002631 Cytochrome c; Region: Cytochrom_C; cl11414 666681002632 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 666681002633 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 666681002634 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 666681002635 dimer interface [polypeptide binding]; other site 666681002636 FMN binding site [chemical binding]; other site 666681002637 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 666681002638 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 666681002639 dinuclear metal binding motif [ion binding]; other site 666681002640 phosphoserine phosphatase SerB; Region: serB; TIGR00338 666681002641 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 666681002642 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 666681002643 motif II; other site 666681002644 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 666681002645 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 666681002646 CoA-ligase; Region: Ligase_CoA; pfam00549 666681002647 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 666681002648 CoA binding domain; Region: CoA_binding; smart00881 666681002649 CoA-ligase; Region: Ligase_CoA; pfam00549 666681002650 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 666681002651 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 666681002652 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 666681002653 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 666681002654 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 666681002655 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 666681002656 NAD synthetase; Provisional; Region: PRK13981 666681002657 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 666681002658 multimer interface [polypeptide binding]; other site 666681002659 active site 666681002660 catalytic triad [active] 666681002661 protein interface 1 [polypeptide binding]; other site 666681002662 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 666681002663 homodimer interface [polypeptide binding]; other site 666681002664 NAD binding pocket [chemical binding]; other site 666681002665 ATP binding pocket [chemical binding]; other site 666681002666 Mg binding site [ion binding]; other site 666681002667 active-site loop [active] 666681002668 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 666681002669 Nitrogen regulatory protein P-II; Region: P-II; smart00938 666681002670 Protein of unknown function, DUF486; Region: DUF486; cl01236 666681002671 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 666681002672 dimerization interface [polypeptide binding]; other site 666681002673 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681002674 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681002675 metal binding site [ion binding]; metal-binding site 666681002676 active site 666681002677 I-site; other site 666681002678 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 666681002679 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 666681002680 heme-binding site [chemical binding]; other site 666681002681 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 666681002682 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 666681002683 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 666681002684 G1 box; other site 666681002685 GTP/Mg2+ binding site [chemical binding]; other site 666681002686 Switch I region; other site 666681002687 G2 box; other site 666681002688 G3 box; other site 666681002689 Switch II region; other site 666681002690 G4 box; other site 666681002691 G5 box; other site 666681002692 Nucleoside recognition; Region: Gate; pfam07670 666681002693 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 666681002694 Nucleoside recognition; Region: Gate; pfam07670 666681002695 FeoA domain; Region: FeoA; pfam04023 666681002696 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 666681002697 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 666681002698 BolA-like protein; Region: BolA; pfam01722 666681002699 YciI-like protein; Reviewed; Region: PRK11370 666681002700 Intracellular septation protein A; Region: IspA; pfam04279 666681002701 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 666681002702 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 666681002703 active site 666681002704 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 666681002705 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 666681002706 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 666681002707 Peptidase family M50; Region: Peptidase_M50; pfam02163 666681002708 active site 666681002709 putative substrate binding region [chemical binding]; other site 666681002710 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 666681002711 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 666681002712 active site 666681002713 HIGH motif; other site 666681002714 dimer interface [polypeptide binding]; other site 666681002715 KMSKS motif; other site 666681002716 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 666681002717 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 666681002718 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 666681002719 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 666681002720 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 666681002721 RNA binding surface [nucleotide binding]; other site 666681002722 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 666681002723 probable active site [active] 666681002724 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 666681002725 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 666681002726 S-adenosylmethionine binding site [chemical binding]; other site 666681002727 HemK family putative methylases; Region: hemK_fam; TIGR00536 666681002728 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 666681002729 S-adenosylmethionine binding site [chemical binding]; other site 666681002730 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 666681002731 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 666681002732 metal binding site [ion binding]; metal-binding site 666681002733 dimer interface [polypeptide binding]; other site 666681002734 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 666681002735 ArsC family; Region: ArsC; pfam03960 666681002736 putative catalytic residues [active] 666681002737 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 666681002738 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681002739 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681002740 metal binding site [ion binding]; metal-binding site 666681002741 active site 666681002742 I-site; other site 666681002743 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 666681002744 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 666681002745 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 666681002746 trimer interface [polypeptide binding]; other site 666681002747 active site 666681002748 substrate binding site [chemical binding]; other site 666681002749 CoA binding site [chemical binding]; other site 666681002750 Peptidase family M48; Region: Peptidase_M48; pfam01435 666681002751 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 666681002752 potassium uptake protein; Region: kup; TIGR00794 666681002753 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 666681002754 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 666681002755 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 666681002756 ligand binding site [chemical binding]; other site 666681002757 Transcriptional regulator [Transcription]; Region: LysR; COG0583 666681002758 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 666681002759 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; cd05466 666681002760 dimerization interface [polypeptide binding]; other site 666681002761 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 666681002762 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 666681002763 HlyD family secretion protein; Region: HlyD_3; pfam13437 666681002764 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 666681002765 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 666681002766 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 666681002767 active site 1 [active] 666681002768 dimer interface [polypeptide binding]; other site 666681002769 hexamer interface [polypeptide binding]; other site 666681002770 active site 2 [active] 666681002771 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 666681002772 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 666681002773 MarR family; Region: MarR_2; pfam12802 666681002774 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 666681002775 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 666681002776 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 666681002777 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 666681002778 potential catalytic triad [active] 666681002779 conserved cys residue [active] 666681002780 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 666681002781 EamA-like transporter family; Region: EamA; pfam00892 666681002782 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 666681002783 EamA-like transporter family; Region: EamA; pfam00892 666681002784 recombination associated protein; Reviewed; Region: rdgC; PRK00321 666681002785 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 666681002786 aromatic arch; other site 666681002787 DCoH dimer interaction site [polypeptide binding]; other site 666681002788 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 666681002789 DCoH tetramer interaction site [polypeptide binding]; other site 666681002790 substrate binding site [chemical binding]; other site 666681002791 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 666681002792 [2Fe-2S] cluster binding site [ion binding]; other site 666681002793 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 666681002794 Subunit III/VIIa interface [polypeptide binding]; other site 666681002795 Phospholipid binding site [chemical binding]; other site 666681002796 Subunit I/III interface [polypeptide binding]; other site 666681002797 Subunit III/VIb interface [polypeptide binding]; other site 666681002798 Subunit III/VIa interface; other site 666681002799 Subunit III/Vb interface [polypeptide binding]; other site 666681002800 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 666681002801 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 666681002802 Subunit I/III interface [polypeptide binding]; other site 666681002803 D-pathway; other site 666681002804 Subunit I/VIIc interface [polypeptide binding]; other site 666681002805 Subunit I/IV interface [polypeptide binding]; other site 666681002806 Subunit I/II interface [polypeptide binding]; other site 666681002807 Low-spin heme (heme a) binding site [chemical binding]; other site 666681002808 Subunit I/VIIa interface [polypeptide binding]; other site 666681002809 Subunit I/VIa interface [polypeptide binding]; other site 666681002810 Dimer interface; other site 666681002811 Putative water exit pathway; other site 666681002812 Binuclear center (heme a3/CuB) [ion binding]; other site 666681002813 K-pathway; other site 666681002814 Subunit I/Vb interface [polypeptide binding]; other site 666681002815 Putative proton exit pathway; other site 666681002816 Subunit I/VIb interface; other site 666681002817 Subunit I/VIc interface [polypeptide binding]; other site 666681002818 Electron transfer pathway; other site 666681002819 Subunit I/VIIIb interface [polypeptide binding]; other site 666681002820 Subunit I/VIIb interface [polypeptide binding]; other site 666681002821 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 666681002822 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 666681002823 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 666681002824 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 666681002825 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 666681002826 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 666681002827 Yip1 domain; Region: Yip1; cl17815 666681002828 Cupin; Region: Cupin_6; pfam12852 666681002829 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 666681002830 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 666681002831 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 666681002832 DsrE/DsrF-like family; Region: DrsE; cl00672 666681002833 CHASE3 domain; Region: CHASE3; pfam05227 666681002834 PAS fold; Region: PAS_4; pfam08448 666681002835 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 666681002836 putative active site [active] 666681002837 heme pocket [chemical binding]; other site 666681002838 PAS fold; Region: PAS_4; pfam08448 666681002839 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681002840 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681002841 metal binding site [ion binding]; metal-binding site 666681002842 active site 666681002843 I-site; other site 666681002844 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 666681002845 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 666681002846 PAS domain; Region: PAS_9; pfam13426 666681002847 putative active site [active] 666681002848 heme pocket [chemical binding]; other site 666681002849 PAS domain S-box; Region: sensory_box; TIGR00229 666681002850 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 666681002851 putative active site [active] 666681002852 heme pocket [chemical binding]; other site 666681002853 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins; Region: ANTAR; smart01012 666681002854 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 666681002855 PAS fold; Region: PAS_3; pfam08447 666681002856 putative active site [active] 666681002857 heme pocket [chemical binding]; other site 666681002858 HAMP domain; Region: HAMP; pfam00672 666681002859 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 666681002860 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 666681002861 putative active site [active] 666681002862 heme pocket [chemical binding]; other site 666681002863 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 666681002864 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 666681002865 putative active site [active] 666681002866 heme pocket [chemical binding]; other site 666681002867 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 666681002868 putative active site [active] 666681002869 heme pocket [chemical binding]; other site 666681002870 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 666681002871 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 666681002872 dimer interface [polypeptide binding]; other site 666681002873 putative CheW interface [polypeptide binding]; other site 666681002874 CheB methylesterase; Region: CheB_methylest; pfam01339 666681002875 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 666681002876 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 666681002877 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 666681002878 JNK_SAPK-associated protein-1; Region: Jnk-SapK_ap_N; pfam09744 666681002879 PAS domain; Region: PAS_10; pfam13596 666681002880 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 666681002881 putative active site [active] 666681002882 heme pocket [chemical binding]; other site 666681002883 PAS domain; Region: PAS; smart00091 666681002884 PAS domain; Region: PAS_9; pfam13426 666681002885 putative active site [active] 666681002886 heme pocket [chemical binding]; other site 666681002887 carboxy-terminal protease; Provisional; Region: PRK11186 666681002888 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 666681002889 protein binding site [polypeptide binding]; other site 666681002890 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 666681002891 Catalytic dyad [active] 666681002892 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 666681002893 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 666681002894 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 666681002895 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 666681002896 dimerization interface [polypeptide binding]; other site 666681002897 Pirin-related protein [General function prediction only]; Region: COG1741 666681002898 Pirin; Region: Pirin; pfam02678 666681002899 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 666681002900 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 666681002901 NADP binding site [chemical binding]; other site 666681002902 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 666681002903 PAS fold; Region: PAS_3; pfam08447 666681002904 putative active site [active] 666681002905 heme pocket [chemical binding]; other site 666681002906 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681002907 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681002908 metal binding site [ion binding]; metal-binding site 666681002909 active site 666681002910 I-site; other site 666681002911 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 666681002912 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 666681002913 catalytic triad [active] 666681002914 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 666681002915 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 666681002916 S-adenosylmethionine binding site [chemical binding]; other site 666681002917 Cache domain; Region: Cache_1; pfam02743 666681002918 HAMP domain; Region: HAMP; pfam00672 666681002919 dimerization interface [polypeptide binding]; other site 666681002920 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 666681002921 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 666681002922 dimer interface [polypeptide binding]; other site 666681002923 putative CheW interface [polypeptide binding]; other site 666681002924 ParA-like protein; Provisional; Region: PHA02518 666681002925 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 666681002926 P-loop; other site 666681002927 Magnesium ion binding site [ion binding]; other site 666681002928 ABC transporter ATPase component; Reviewed; Region: PRK11147 666681002929 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 666681002930 Walker A/P-loop; other site 666681002931 ATP binding site [chemical binding]; other site 666681002932 Q-loop/lid; other site 666681002933 ABC transporter signature motif; other site 666681002934 Walker B; other site 666681002935 D-loop; other site 666681002936 H-loop/switch region; other site 666681002937 ABC transporter; Region: ABC_tran_2; pfam12848 666681002938 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 666681002939 Transcriptional regulators [Transcription]; Region: MarR; COG1846 666681002940 MarR family; Region: MarR; pfam01047 666681002941 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 666681002942 putative heme binding pocket [chemical binding]; other site 666681002943 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 666681002944 Part of AAA domain; Region: AAA_19; pfam13245 666681002945 Family description; Region: UvrD_C_2; pfam13538 666681002946 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 666681002947 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 666681002948 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 666681002949 active site 666681002950 phosphorylation site [posttranslational modification] 666681002951 intermolecular recognition site; other site 666681002952 dimerization interface [polypeptide binding]; other site 666681002953 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 666681002954 DNA binding site [nucleotide binding] 666681002955 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 666681002956 dimer interface [polypeptide binding]; other site 666681002957 phosphorylation site [posttranslational modification] 666681002958 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 666681002959 ATP binding site [chemical binding]; other site 666681002960 Mg2+ binding site [ion binding]; other site 666681002961 G-X-G motif; other site 666681002962 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 666681002963 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 666681002964 GTP/Mg2+ binding site [chemical binding]; other site 666681002965 G4 box; other site 666681002966 G5 box; other site 666681002967 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 666681002968 G1 box; other site 666681002969 G1 box; other site 666681002970 GTP/Mg2+ binding site [chemical binding]; other site 666681002971 Switch I region; other site 666681002972 G2 box; other site 666681002973 G2 box; other site 666681002974 G3 box; other site 666681002975 G3 box; other site 666681002976 Switch II region; other site 666681002977 Switch II region; other site 666681002978 G4 box; other site 666681002979 Methyltransferase domain; Region: Methyltransf_32; pfam13679 666681002980 Methyltransferase domain; Region: Methyltransf_31; pfam13847 666681002981 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 666681002982 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 666681002983 DAK2 domain; Region: Dak2; cl03685 666681002984 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 666681002985 dimerization interface [polypeptide binding]; other site 666681002986 Histidine kinase; Region: HisKA_3; pfam07730 666681002987 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 666681002988 ATP binding site [chemical binding]; other site 666681002989 Mg2+ binding site [ion binding]; other site 666681002990 G-X-G motif; other site 666681002991 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 666681002992 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 666681002993 active site 666681002994 phosphorylation site [posttranslational modification] 666681002995 intermolecular recognition site; other site 666681002996 dimerization interface [polypeptide binding]; other site 666681002997 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 666681002998 DNA binding residues [nucleotide binding] 666681002999 dimerization interface [polypeptide binding]; other site 666681003000 EamA-like transporter family; Region: EamA; pfam00892 666681003001 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 666681003002 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 666681003003 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 666681003004 [2Fe-2S] cluster binding site [ion binding]; other site 666681003005 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 666681003006 alpha subunit interface [polypeptide binding]; other site 666681003007 active site 666681003008 substrate binding site [chemical binding]; other site 666681003009 Fe binding site [ion binding]; other site 666681003010 acetylornithine aminotransferase; Provisional; Region: PRK02627 666681003011 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 666681003012 inhibitor-cofactor binding pocket; inhibition site 666681003013 pyridoxal 5'-phosphate binding site [chemical binding]; other site 666681003014 catalytic residue [active] 666681003015 ornithine carbamoyltransferase; Provisional; Region: PRK00779 666681003016 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 666681003017 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 666681003018 argininosuccinate synthase; Provisional; Region: PRK13820 666681003019 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 666681003020 ANP binding site [chemical binding]; other site 666681003021 Substrate Binding Site II [chemical binding]; other site 666681003022 Substrate Binding Site I [chemical binding]; other site 666681003023 Formaldehyde-activating enzyme (Fae); Region: Fae; pfam08714 666681003024 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 666681003025 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 666681003026 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 666681003027 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13487 666681003028 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 666681003029 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 666681003030 active site 666681003031 phosphorylation site [posttranslational modification] 666681003032 intermolecular recognition site; other site 666681003033 dimerization interface [polypeptide binding]; other site 666681003034 CheB methylesterase; Region: CheB_methylest; pfam01339 666681003035 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 666681003036 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 666681003037 active site 666681003038 phosphorylation site [posttranslational modification] 666681003039 intermolecular recognition site; other site 666681003040 dimerization interface [polypeptide binding]; other site 666681003041 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 666681003042 CHASE4 domain; Region: CHASE4; pfam05228 666681003043 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 666681003044 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 666681003045 PAS domain; Region: PAS_9; pfam13426 666681003046 putative active site [active] 666681003047 heme pocket [chemical binding]; other site 666681003048 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681003049 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681003050 metal binding site [ion binding]; metal-binding site 666681003051 active site 666681003052 I-site; other site 666681003053 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 666681003054 Protein of unknown function (DUF779); Region: DUF779; cl01432 666681003055 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 666681003056 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 666681003057 NAD(P) binding site [chemical binding]; other site 666681003058 catalytic residues [active] 666681003059 Isochorismatase family; Region: Isochorismatase; pfam00857 666681003060 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 666681003061 catalytic triad [active] 666681003062 conserved cis-peptide bond; other site 666681003063 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 666681003064 cyclase homology domain; Region: CHD; cd07302 666681003065 nucleotidyl binding site; other site 666681003066 metal binding site [ion binding]; metal-binding site 666681003067 dimer interface [polypeptide binding]; other site 666681003068 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 666681003069 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 666681003070 active site residue [active] 666681003071 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 666681003072 domain_subunit interface; other site 666681003073 formylmethanofuran--tetrahydromethanopterin formyltransferase; Provisional; Region: PRK02114 666681003074 Formylmethanofuran-tetrahydromethanopterin formyltransferase; Region: FTR; pfam01913 666681003075 FTR, proximal lobe; Region: FTR_C; pfam02741 666681003076 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 666681003077 formylmethanofuran dehydrogenase subunit A; Region: one_C_dehyd_A; TIGR03121 666681003078 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 666681003079 active site 666681003080 The MopB_FmdB-FwdB CD contains the molybdenum/tungsten formylmethanofuran dehydrogenases, subunit B (FmdB/FwdB), and other related proteins. Formylmethanofuran dehydrogenase catalyzes the first step in methane formation from CO2 in methanogenic archaea...; Region: MopB_FmdB-FwdB; cd02761 666681003081 formylmethanofuran dehydrogenase subunit B; Region: one_C_dehyd_B; TIGR03129 666681003082 putative [4Fe-4S] binding site [ion binding]; other site 666681003083 putative molybdopterin cofactor binding site [chemical binding]; other site 666681003084 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 666681003085 active site 666681003086 multimer interface [polypeptide binding]; other site 666681003087 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 666681003088 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 666681003089 FeS/SAM binding site; other site 666681003090 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 666681003091 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 666681003092 TPR motif; other site 666681003093 binding surface 666681003094 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 666681003095 binding surface 666681003096 TPR motif; other site 666681003097 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 666681003098 non-specific DNA binding site [nucleotide binding]; other site 666681003099 Helix-turn-helix domain; Region: HTH_25; pfam13413 666681003100 salt bridge; other site 666681003101 sequence-specific DNA binding site [nucleotide binding]; other site 666681003102 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 666681003103 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 666681003104 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 666681003105 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 666681003106 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 666681003107 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 666681003108 dimer interface [polypeptide binding]; other site 666681003109 motif 1; other site 666681003110 active site 666681003111 motif 2; other site 666681003112 motif 3; other site 666681003113 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 666681003114 anticodon binding site; other site 666681003115 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 666681003116 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 666681003117 Walker A/P-loop; other site 666681003118 ATP binding site [chemical binding]; other site 666681003119 Q-loop/lid; other site 666681003120 ABC transporter signature motif; other site 666681003121 Walker B; other site 666681003122 D-loop; other site 666681003123 H-loop/switch region; other site 666681003124 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 666681003125 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 666681003126 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 666681003127 Walker A/P-loop; other site 666681003128 ATP binding site [chemical binding]; other site 666681003129 Q-loop/lid; other site 666681003130 ABC transporter signature motif; other site 666681003131 Walker B; other site 666681003132 D-loop; other site 666681003133 H-loop/switch region; other site 666681003134 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 666681003135 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 666681003136 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 666681003137 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 666681003138 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 666681003139 Trp docking motif [polypeptide binding]; other site 666681003140 active site 666681003141 GTP-binding protein Der; Reviewed; Region: PRK00093 666681003142 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 666681003143 G1 box; other site 666681003144 GTP/Mg2+ binding site [chemical binding]; other site 666681003145 Switch I region; other site 666681003146 G2 box; other site 666681003147 Switch II region; other site 666681003148 G3 box; other site 666681003149 G4 box; other site 666681003150 G5 box; other site 666681003151 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 666681003152 G1 box; other site 666681003153 GTP/Mg2+ binding site [chemical binding]; other site 666681003154 Switch I region; other site 666681003155 G2 box; other site 666681003156 G3 box; other site 666681003157 Switch II region; other site 666681003158 G4 box; other site 666681003159 G5 box; other site 666681003160 Ferritin-like domain; Region: Ferritin; pfam00210 666681003161 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 666681003162 dinuclear metal binding motif [ion binding]; other site 666681003163 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 666681003164 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 666681003165 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 666681003166 RNA binding surface [nucleotide binding]; other site 666681003167 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 666681003168 active site 666681003169 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 666681003170 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 666681003171 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 666681003172 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 666681003173 putative active site [active] 666681003174 metal binding site [ion binding]; metal-binding site 666681003175 ZIP Zinc transporter; Region: Zip; pfam02535 666681003176 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 666681003177 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 666681003178 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 666681003179 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 666681003180 FeS/SAM binding site; other site 666681003181 Predicted transcriptional regulators [Transcription]; Region: COG1733 666681003182 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 666681003183 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 666681003184 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 666681003185 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 666681003186 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 666681003187 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 666681003188 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 666681003189 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 666681003190 HlyD family secretion protein; Region: HlyD_3; pfam13437 666681003191 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 666681003192 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 666681003193 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 666681003194 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 666681003195 HIGH motif; other site 666681003196 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 666681003197 active site 666681003198 KMSKS motif; other site 666681003199 bacterial Hfq-like; Region: Hfq; cd01716 666681003200 hexamer interface [polypeptide binding]; other site 666681003201 Sm1 motif; other site 666681003202 RNA binding site [nucleotide binding]; other site 666681003203 Sm2 motif; other site 666681003204 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 666681003205 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 666681003206 HflX GTPase family; Region: HflX; cd01878 666681003207 G1 box; other site 666681003208 GTP/Mg2+ binding site [chemical binding]; other site 666681003209 Switch I region; other site 666681003210 G2 box; other site 666681003211 G3 box; other site 666681003212 Switch II region; other site 666681003213 G4 box; other site 666681003214 G5 box; other site 666681003215 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 666681003216 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 666681003217 HflK protein; Region: hflK; TIGR01933 666681003218 HflC protein; Region: hflC; TIGR01932 666681003219 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 666681003220 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 666681003221 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 666681003222 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 666681003223 dimer interface [polypeptide binding]; other site 666681003224 motif 1; other site 666681003225 active site 666681003226 motif 2; other site 666681003227 motif 3; other site 666681003228 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 666681003229 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 666681003230 GDP-binding site [chemical binding]; other site 666681003231 ACT binding site; other site 666681003232 IMP binding site; other site 666681003233 archaeoflavoprotein AfpA; Region: archaeo_AfpA; TIGR02699 666681003234 Flavoprotein; Region: Flavoprotein; pfam02441 666681003235 dihydropteroate synthase-related protein; Region: TIGR00284 666681003236 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 666681003237 substrate binding pocket [chemical binding]; other site 666681003238 dimer interface [polypeptide binding]; other site 666681003239 inhibitor binding site; inhibition site 666681003240 Protein of unknown function (DUF447); Region: DUF447; pfam04289 666681003241 hypothetical protein; Provisional; Region: PRK02227 666681003242 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 666681003243 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 666681003244 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 666681003245 ligand binding site [chemical binding]; other site 666681003246 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 666681003247 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 666681003248 active site 666681003249 putative substrate binding pocket [chemical binding]; other site 666681003250 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 666681003251 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 666681003252 S-adenosylmethionine binding site [chemical binding]; other site 666681003253 phosphoglycolate phosphatase; Provisional; Region: PRK13226 666681003254 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 666681003255 active site 666681003256 motif I; other site 666681003257 motif II; other site 666681003258 recombination protein RecR; Reviewed; Region: recR; PRK00076 666681003259 RecR protein; Region: RecR; pfam02132 666681003260 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 666681003261 putative active site [active] 666681003262 putative metal-binding site [ion binding]; other site 666681003263 tetramer interface [polypeptide binding]; other site 666681003264 hypothetical protein; Validated; Region: PRK00153 666681003265 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14969 666681003266 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 666681003267 Walker A motif; other site 666681003268 ATP binding site [chemical binding]; other site 666681003269 Walker B motif; other site 666681003270 arginine finger; other site 666681003271 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 666681003272 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681003273 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681003274 metal binding site [ion binding]; metal-binding site 666681003275 active site 666681003276 I-site; other site 666681003277 PAS fold; Region: PAS_3; pfam08447 666681003278 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 666681003279 Histidine kinase; Region: HisKA_3; pfam07730 666681003280 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 666681003281 ATP binding site [chemical binding]; other site 666681003282 Mg2+ binding site [ion binding]; other site 666681003283 G-X-G motif; other site 666681003284 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 666681003285 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 666681003286 active site 666681003287 phosphorylation site [posttranslational modification] 666681003288 intermolecular recognition site; other site 666681003289 dimerization interface [polypeptide binding]; other site 666681003290 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 666681003291 DNA binding residues [nucleotide binding] 666681003292 dimerization interface [polypeptide binding]; other site 666681003293 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 666681003294 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 666681003295 putative active site [active] 666681003296 heme pocket [chemical binding]; other site 666681003297 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 666681003298 putative active site [active] 666681003299 heme pocket [chemical binding]; other site 666681003300 PAS domain S-box; Region: sensory_box; TIGR00229 666681003301 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 666681003302 putative active site [active] 666681003303 heme pocket [chemical binding]; other site 666681003304 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 666681003305 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 666681003306 dimer interface [polypeptide binding]; other site 666681003307 phosphorylation site [posttranslational modification] 666681003308 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 666681003309 ATP binding site [chemical binding]; other site 666681003310 Mg2+ binding site [ion binding]; other site 666681003311 G-X-G motif; other site 666681003312 Response regulator receiver domain; Region: Response_reg; pfam00072 666681003313 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 666681003314 active site 666681003315 phosphorylation site [posttranslational modification] 666681003316 intermolecular recognition site; other site 666681003317 dimerization interface [polypeptide binding]; other site 666681003318 Response regulator receiver domain; Region: Response_reg; pfam00072 666681003319 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 666681003320 active site 666681003321 phosphorylation site [posttranslational modification] 666681003322 intermolecular recognition site; other site 666681003323 dimerization interface [polypeptide binding]; other site 666681003324 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 666681003325 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 666681003326 ligand binding site [chemical binding]; other site 666681003327 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 666681003328 non-specific DNA interactions [nucleotide binding]; other site 666681003329 DNA binding site [nucleotide binding] 666681003330 sequence specific DNA binding site [nucleotide binding]; other site 666681003331 putative cAMP binding site [chemical binding]; other site 666681003332 YHS domain; Region: YHS; pfam04945 666681003333 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 666681003334 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 666681003335 Soluble P-type ATPase [General function prediction only]; Region: COG4087 666681003336 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 666681003337 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 666681003338 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 666681003339 Ferritin-like domain; Region: Ferritin; pfam00210 666681003340 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 666681003341 dinuclear metal binding motif [ion binding]; other site 666681003342 CsbD-like; Region: CsbD; cl17424 666681003343 YqjK-like protein; Region: YqjK; pfam13997 666681003344 Predicted membrane protein [Function unknown]; Region: COG5393 666681003345 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 666681003346 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 666681003347 PLD-like domain; Region: PLDc_2; pfam13091 666681003348 putative active site [active] 666681003349 catalytic site [active] 666681003350 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 666681003351 PLD-like domain; Region: PLDc_2; pfam13091 666681003352 putative active site [active] 666681003353 catalytic site [active] 666681003354 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 666681003355 Predicted small secreted protein [Function unknown]; Region: COG5510 666681003356 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 666681003357 EF-hand domain pair; Region: EF_hand_5; pfam13499 666681003358 Ca2+ binding site [ion binding]; other site 666681003359 BON domain; Region: BON; pfam04972 666681003360 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 666681003361 IHF dimer interface [polypeptide binding]; other site 666681003362 IHF - DNA interface [nucleotide binding]; other site 666681003363 Phosphate uptake regulator [Inorganic ion transport and metabolism]; Region: PhoU; COG0704 666681003364 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 666681003365 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 666681003366 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 666681003367 binding surface 666681003368 TPR motif; other site 666681003369 TPR repeat; Region: TPR_11; pfam13414 666681003370 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 666681003371 binding surface 666681003372 TPR motif; other site 666681003373 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 666681003374 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 666681003375 binding surface 666681003376 TPR motif; other site 666681003377 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 666681003378 binding surface 666681003379 TPR motif; other site 666681003380 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 666681003381 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 666681003382 binding surface 666681003383 TPR motif; other site 666681003384 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 666681003385 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 666681003386 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 666681003387 binding surface 666681003388 Tetratricopeptide repeat; Region: TPR_16; pfam13432 666681003389 TPR motif; other site 666681003390 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 666681003391 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 666681003392 FlaG protein; Region: FlaG; pfam03646 666681003393 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 666681003394 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 666681003395 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 666681003396 flagellar protein FliS; Validated; Region: fliS; PRK05685 666681003397 Flagellar protein FliT; Region: FliT; pfam05400 666681003398 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 666681003399 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 666681003400 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 666681003401 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 666681003402 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 666681003403 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 666681003404 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 666681003405 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 666681003406 FliG C-terminal domain; Region: FliG_C; pfam01706 666681003407 flagellar assembly protein H; Validated; Region: fliH; PRK05687 666681003408 Flagellar assembly protein FliH; Region: FliH; pfam02108 666681003409 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 666681003410 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 666681003411 Walker A motif/ATP binding site; other site 666681003412 Walker B motif; other site 666681003413 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 666681003414 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 666681003415 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 666681003416 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 666681003417 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 666681003418 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 666681003419 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 666681003420 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 666681003421 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 666681003422 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 666681003423 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 666681003424 Flagellar regulator YcgR; Region: YcgR; pfam07317 666681003425 PilZ domain; Region: PilZ; pfam07238 666681003426 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 666681003427 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 666681003428 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 666681003429 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 666681003430 S-adenosylmethionine binding site [chemical binding]; other site 666681003431 EF-hand domain pair; Region: EF_hand_5; pfam13499 666681003432 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 666681003433 Ca2+ binding site [ion binding]; other site 666681003434 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 666681003435 dimerization interface [polypeptide binding]; other site 666681003436 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 666681003437 dimer interface [polypeptide binding]; other site 666681003438 phosphorylation site [posttranslational modification] 666681003439 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 666681003440 ATP binding site [chemical binding]; other site 666681003441 Mg2+ binding site [ion binding]; other site 666681003442 G-X-G motif; other site 666681003443 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 666681003444 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 666681003445 active site 666681003446 phosphorylation site [posttranslational modification] 666681003447 intermolecular recognition site; other site 666681003448 dimerization interface [polypeptide binding]; other site 666681003449 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 666681003450 DNA binding site [nucleotide binding] 666681003451 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 666681003452 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 666681003453 FAD binding pocket [chemical binding]; other site 666681003454 FAD binding motif [chemical binding]; other site 666681003455 phosphate binding motif [ion binding]; other site 666681003456 beta-alpha-beta structure motif; other site 666681003457 NAD binding pocket [chemical binding]; other site 666681003458 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 666681003459 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 666681003460 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 666681003461 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 666681003462 Ligand binding site [chemical binding]; other site 666681003463 Electron transfer flavoprotein domain; Region: ETF; pfam01012 666681003464 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 666681003465 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 666681003466 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 666681003467 putative dimerization interface [polypeptide binding]; other site 666681003468 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 666681003469 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 666681003470 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 666681003471 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 666681003472 Major Facilitator Superfamily; Region: MFS_1; pfam07690 666681003473 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 666681003474 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 666681003475 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 666681003476 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 666681003477 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 666681003478 tetrameric interface [polypeptide binding]; other site 666681003479 NAD binding site [chemical binding]; other site 666681003480 catalytic residues [active] 666681003481 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 666681003482 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 666681003483 inhibitor-cofactor binding pocket; inhibition site 666681003484 pyridoxal 5'-phosphate binding site [chemical binding]; other site 666681003485 catalytic residue [active] 666681003486 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 666681003487 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 666681003488 non-specific DNA binding site [nucleotide binding]; other site 666681003489 salt bridge; other site 666681003490 sequence-specific DNA binding site [nucleotide binding]; other site 666681003491 Cupin domain; Region: Cupin_2; pfam07883 666681003492 MASE1; Region: MASE1; cl17823 666681003493 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681003494 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681003495 metal binding site [ion binding]; metal-binding site 666681003496 active site 666681003497 I-site; other site 666681003498 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 666681003499 triosephosphate isomerase; Provisional; Region: PRK14567 666681003500 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 666681003501 substrate binding site [chemical binding]; other site 666681003502 dimer interface [polypeptide binding]; other site 666681003503 catalytic triad [active] 666681003504 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 666681003505 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 666681003506 tetrameric interface [polypeptide binding]; other site 666681003507 NAD binding site [chemical binding]; other site 666681003508 catalytic residues [active] 666681003509 substrate binding site [chemical binding]; other site 666681003510 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 666681003511 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 666681003512 dimer interface [polypeptide binding]; other site 666681003513 conserved gate region; other site 666681003514 putative PBP binding loops; other site 666681003515 ABC-ATPase subunit interface; other site 666681003516 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 666681003517 dimer interface [polypeptide binding]; other site 666681003518 conserved gate region; other site 666681003519 putative PBP binding loops; other site 666681003520 ABC-ATPase subunit interface; other site 666681003521 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 666681003522 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 666681003523 Walker A/P-loop; other site 666681003524 ATP binding site [chemical binding]; other site 666681003525 Q-loop/lid; other site 666681003526 ABC transporter signature motif; other site 666681003527 Walker B; other site 666681003528 D-loop; other site 666681003529 H-loop/switch region; other site 666681003530 TOBE domain; Region: TOBE_2; pfam08402 666681003531 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 666681003532 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 666681003533 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 666681003534 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 666681003535 putative DNA binding site [nucleotide binding]; other site 666681003536 putative Zn2+ binding site [ion binding]; other site 666681003537 AsnC family; Region: AsnC_trans_reg; pfam01037 666681003538 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 666681003539 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 666681003540 alanine racemase; Reviewed; Region: dadX; PRK03646 666681003541 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 666681003542 active site 666681003543 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 666681003544 substrate binding site [chemical binding]; other site 666681003545 catalytic residues [active] 666681003546 dimer interface [polypeptide binding]; other site 666681003547 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 666681003548 homotrimer interaction site [polypeptide binding]; other site 666681003549 putative active site [active] 666681003550 Predicted integral membrane protein [Function unknown]; Region: COG3548 666681003551 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 666681003552 aminotransferase; Validated; Region: PRK07046 666681003553 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 666681003554 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 666681003555 catalytic residue [active] 666681003556 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 666681003557 agmatinase; Region: agmatinase; TIGR01230 666681003558 oligomer interface [polypeptide binding]; other site 666681003559 putative active site [active] 666681003560 Mn binding site [ion binding]; other site 666681003561 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 666681003562 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 666681003563 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 666681003564 dimer interface [polypeptide binding]; other site 666681003565 putative radical transfer pathway; other site 666681003566 diiron center [ion binding]; other site 666681003567 tyrosyl radical; other site 666681003568 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 666681003569 ATP cone domain; Region: ATP-cone; pfam03477 666681003570 Class I ribonucleotide reductase; Region: RNR_I; cd01679 666681003571 active site 666681003572 dimer interface [polypeptide binding]; other site 666681003573 catalytic residues [active] 666681003574 effector binding site; other site 666681003575 R2 peptide binding site; other site 666681003576 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 666681003577 CIMS - Cobalamine-independent methonine synthase, or MetE, N-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_N_terminal_like; cd03312 666681003578 THF binding site; other site 666681003579 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 666681003580 substrate binding site [chemical binding]; other site 666681003581 THF binding site; other site 666681003582 zinc-binding site [ion binding]; other site 666681003583 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 666681003584 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 666681003585 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 666681003586 dimerization interface [polypeptide binding]; other site 666681003587 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 666681003588 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 666681003589 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 666681003590 Coenzyme A binding pocket [chemical binding]; other site 666681003591 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 666681003592 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 666681003593 HlyD family secretion protein; Region: HlyD_3; pfam13437 666681003594 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 666681003595 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 666681003596 Walker A/P-loop; other site 666681003597 ATP binding site [chemical binding]; other site 666681003598 Q-loop/lid; other site 666681003599 ABC transporter signature motif; other site 666681003600 Walker B; other site 666681003601 D-loop; other site 666681003602 H-loop/switch region; other site 666681003603 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 666681003604 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 666681003605 FtsX-like permease family; Region: FtsX; pfam02687 666681003606 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 666681003607 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 666681003608 DNA-binding site [nucleotide binding]; DNA binding site 666681003609 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 666681003610 pyridoxal 5'-phosphate binding site [chemical binding]; other site 666681003611 homodimer interface [polypeptide binding]; other site 666681003612 catalytic residue [active] 666681003613 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 666681003614 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 666681003615 catalytic triad [active] 666681003616 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 666681003617 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 666681003618 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 666681003619 putative aminotransferase; Validated; Region: PRK07480 666681003620 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 666681003621 inhibitor-cofactor binding pocket; inhibition site 666681003622 pyridoxal 5'-phosphate binding site [chemical binding]; other site 666681003623 catalytic residue [active] 666681003624 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 666681003625 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 666681003626 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 666681003627 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 666681003628 Walker A/P-loop; other site 666681003629 ATP binding site [chemical binding]; other site 666681003630 Q-loop/lid; other site 666681003631 ABC transporter signature motif; other site 666681003632 Walker B; other site 666681003633 D-loop; other site 666681003634 H-loop/switch region; other site 666681003635 TOBE domain; Region: TOBE_2; pfam08402 666681003636 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 666681003637 dimer interface [polypeptide binding]; other site 666681003638 conserved gate region; other site 666681003639 putative PBP binding loops; other site 666681003640 ABC-ATPase subunit interface; other site 666681003641 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 666681003642 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 666681003643 dimer interface [polypeptide binding]; other site 666681003644 conserved gate region; other site 666681003645 putative PBP binding loops; other site 666681003646 ABC-ATPase subunit interface; other site 666681003647 succinic semialdehyde dehydrogenase; Region: PLN02278 666681003648 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 666681003649 tetramerization interface [polypeptide binding]; other site 666681003650 NAD(P) binding site [chemical binding]; other site 666681003651 catalytic residues [active] 666681003652 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 666681003653 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 666681003654 NAD(P) binding site [chemical binding]; other site 666681003655 catalytic residues [active] 666681003656 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 666681003657 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 666681003658 inhibitor-cofactor binding pocket; inhibition site 666681003659 pyridoxal 5'-phosphate binding site [chemical binding]; other site 666681003660 catalytic residue [active] 666681003661 phosphoglucomutase; Region: PLN02307 666681003662 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 666681003663 substrate binding site [chemical binding]; other site 666681003664 dimer interface [polypeptide binding]; other site 666681003665 active site 666681003666 metal binding site [ion binding]; metal-binding site 666681003667 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 666681003668 catalytic motif [active] 666681003669 Catalytic residue [active] 666681003670 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 666681003671 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 666681003672 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 666681003673 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 666681003674 dimer interface [polypeptide binding]; other site 666681003675 active site 666681003676 glycine-pyridoxal phosphate binding site [chemical binding]; other site 666681003677 folate binding site [chemical binding]; other site 666681003678 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 666681003679 ATP cone domain; Region: ATP-cone; pfam03477 666681003680 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 666681003681 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 666681003682 catalytic motif [active] 666681003683 Zn binding site [ion binding]; other site 666681003684 RibD C-terminal domain; Region: RibD_C; cl17279 666681003685 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 666681003686 active site 666681003687 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 666681003688 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 666681003689 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 666681003690 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 666681003691 intersubunit interface [polypeptide binding]; other site 666681003692 active site 666681003693 Zn2+ binding site [ion binding]; other site 666681003694 CTP synthetase; Validated; Region: pyrG; PRK05380 666681003695 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 666681003696 Catalytic site [active] 666681003697 active site 666681003698 UTP binding site [chemical binding]; other site 666681003699 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 666681003700 active site 666681003701 putative oxyanion hole; other site 666681003702 catalytic triad [active] 666681003703 enolase; Provisional; Region: eno; PRK00077 666681003704 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 666681003705 dimer interface [polypeptide binding]; other site 666681003706 metal binding site [ion binding]; metal-binding site 666681003707 substrate binding pocket [chemical binding]; other site 666681003708 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 666681003709 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 666681003710 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 666681003711 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 666681003712 von Willebrand factor type A domain; Region: VWA_2; pfam13519 666681003713 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 666681003714 metal ion-dependent adhesion site (MIDAS); other site 666681003715 Protein of unknown function DUF58; Region: DUF58; pfam01882 666681003716 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 666681003717 metal ion-dependent adhesion site (MIDAS); other site 666681003718 MoxR-like ATPases [General function prediction only]; Region: COG0714 666681003719 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 666681003720 Walker A motif; other site 666681003721 ATP binding site [chemical binding]; other site 666681003722 Walker B motif; other site 666681003723 arginine finger; other site 666681003724 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 666681003725 active site 1 [active] 666681003726 dimer interface [polypeptide binding]; other site 666681003727 active site 2 [active] 666681003728 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 666681003729 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 666681003730 dimer interface [polypeptide binding]; other site 666681003731 active site 666681003732 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 666681003733 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 666681003734 aminotransferase AlaT; Validated; Region: PRK09265 666681003735 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 666681003736 pyridoxal 5'-phosphate binding site [chemical binding]; other site 666681003737 homodimer interface [polypeptide binding]; other site 666681003738 catalytic residue [active] 666681003739 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 666681003740 Coenzyme A binding pocket [chemical binding]; other site 666681003741 homoserine dehydrogenase; Provisional; Region: PRK06349 666681003742 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 666681003743 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 666681003744 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 666681003745 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 666681003746 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 666681003747 pyridoxal 5'-phosphate binding site [chemical binding]; other site 666681003748 catalytic residue [active] 666681003749 thymidylate synthase; Reviewed; Region: thyA; PRK01827 666681003750 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 666681003751 dimerization interface [polypeptide binding]; other site 666681003752 active site 666681003753 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 666681003754 EF-hand domain pair; Region: EF_hand_5; pfam13499 666681003755 Ca2+ binding site [ion binding]; other site 666681003756 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 666681003757 EF-hand domain pair; Region: EF_hand_5; pfam13499 666681003758 Ca2+ binding site [ion binding]; other site 666681003759 response regulator GlrR; Provisional; Region: PRK15115 666681003760 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 666681003761 active site 666681003762 phosphorylation site [posttranslational modification] 666681003763 intermolecular recognition site; other site 666681003764 dimerization interface [polypeptide binding]; other site 666681003765 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 666681003766 Walker A motif; other site 666681003767 ATP binding site [chemical binding]; other site 666681003768 Walker B motif; other site 666681003769 arginine finger; other site 666681003770 HAMP domain; Region: HAMP; pfam00672 666681003771 dimerization interface [polypeptide binding]; other site 666681003772 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 666681003773 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 666681003774 dimer interface [polypeptide binding]; other site 666681003775 phosphorylation site [posttranslational modification] 666681003776 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 666681003777 ATP binding site [chemical binding]; other site 666681003778 Mg2+ binding site [ion binding]; other site 666681003779 G-X-G motif; other site 666681003780 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 666681003781 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 666681003782 folate binding site [chemical binding]; other site 666681003783 NADP+ binding site [chemical binding]; other site 666681003784 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 666681003785 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 666681003786 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 666681003787 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 666681003788 catalytic residue [active] 666681003789 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 666681003790 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 666681003791 trimer interface [polypeptide binding]; other site 666681003792 active site 666681003793 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 666681003794 putative active site [active] 666681003795 putative metal binding site [ion binding]; other site 666681003796 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 666681003797 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 666681003798 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 666681003799 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 666681003800 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 666681003801 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 666681003802 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 666681003803 putative active site [active] 666681003804 PEP-CTERM motif; Region: VPEP; pfam07589 666681003805 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 666681003806 putative active site [active] 666681003807 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 666681003808 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 666681003809 ATP binding site [chemical binding]; other site 666681003810 Mg++ binding site [ion binding]; other site 666681003811 motif III; other site 666681003812 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 666681003813 nucleotide binding region [chemical binding]; other site 666681003814 ATP-binding site [chemical binding]; other site 666681003815 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 666681003816 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 666681003817 ATP binding site [chemical binding]; other site 666681003818 Mg++ binding site [ion binding]; other site 666681003819 motif III; other site 666681003820 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 666681003821 nucleotide binding region [chemical binding]; other site 666681003822 ATP-binding site [chemical binding]; other site 666681003823 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 666681003824 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 666681003825 G1 box; other site 666681003826 putative GEF interaction site [polypeptide binding]; other site 666681003827 GTP/Mg2+ binding site [chemical binding]; other site 666681003828 Switch I region; other site 666681003829 G2 box; other site 666681003830 G3 box; other site 666681003831 Switch II region; other site 666681003832 G4 box; other site 666681003833 G5 box; other site 666681003834 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 666681003835 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 666681003836 FHA domain; Region: FHA; pfam00498 666681003837 phosphopeptide binding site; other site 666681003838 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 666681003839 heme-binding residues [chemical binding]; other site 666681003840 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 666681003841 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 666681003842 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 666681003843 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 666681003844 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 666681003845 ligand binding site [chemical binding]; other site 666681003846 flexible hinge region; other site 666681003847 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 666681003848 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 666681003849 ligand binding site [chemical binding]; other site 666681003850 flexible hinge region; other site 666681003851 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 666681003852 4Fe-4S binding domain; Region: Fer4; pfam00037 666681003853 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 666681003854 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 666681003855 AMP binding site [chemical binding]; other site 666681003856 metal binding site [ion binding]; metal-binding site 666681003857 active site 666681003858 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 666681003859 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 666681003860 active site 666681003861 P-loop; other site 666681003862 phosphorylation site [posttranslational modification] 666681003863 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 666681003864 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 666681003865 active site 666681003866 P-loop; other site 666681003867 phosphorylation site [posttranslational modification] 666681003868 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 666681003869 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 666681003870 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 666681003871 putative substrate binding site [chemical binding]; other site 666681003872 putative ATP binding site [chemical binding]; other site 666681003873 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 666681003874 active site 666681003875 phosphorylation site [posttranslational modification] 666681003876 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 666681003877 dimerization domain swap beta strand [polypeptide binding]; other site 666681003878 regulatory protein interface [polypeptide binding]; other site 666681003879 active site 666681003880 regulatory phosphorylation site [posttranslational modification]; other site 666681003881 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 666681003882 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 666681003883 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 666681003884 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 666681003885 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 666681003886 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 666681003887 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 666681003888 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 666681003889 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 666681003890 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 666681003891 Walker A/P-loop; other site 666681003892 ATP binding site [chemical binding]; other site 666681003893 Q-loop/lid; other site 666681003894 ABC transporter signature motif; other site 666681003895 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 666681003896 Walker B; other site 666681003897 D-loop; other site 666681003898 ABC transporter; Region: ABC_tran_2; pfam12848 666681003899 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 666681003900 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 666681003901 dimer interface [polypeptide binding]; other site 666681003902 FMN binding site [chemical binding]; other site 666681003903 transcription elongation factor regulatory protein; Validated; Region: PRK06342 666681003904 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 666681003905 GMP synthase; Reviewed; Region: guaA; PRK00074 666681003906 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 666681003907 AMP/PPi binding site [chemical binding]; other site 666681003908 candidate oxyanion hole; other site 666681003909 catalytic triad [active] 666681003910 potential glutamine specificity residues [chemical binding]; other site 666681003911 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 666681003912 ATP Binding subdomain [chemical binding]; other site 666681003913 Ligand Binding sites [chemical binding]; other site 666681003914 Dimerization subdomain; other site 666681003915 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 666681003916 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 666681003917 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 666681003918 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 666681003919 active site 666681003920 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 666681003921 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 666681003922 DNA-binding site [nucleotide binding]; DNA binding site 666681003923 UTRA domain; Region: UTRA; pfam07702 666681003924 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 666681003925 hypothetical protein; Validated; Region: PRK01777 666681003926 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 666681003927 putative coenzyme Q binding site [chemical binding]; other site 666681003928 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 666681003929 SmpB-tmRNA interface; other site 666681003930 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 666681003931 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 666681003932 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 666681003933 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 666681003934 ligand binding site [chemical binding]; other site 666681003935 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 666681003936 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 666681003937 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 666681003938 ATP binding site [chemical binding]; other site 666681003939 putative Mg++ binding site [ion binding]; other site 666681003940 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 666681003941 nucleotide binding region [chemical binding]; other site 666681003942 ATP-binding site [chemical binding]; other site 666681003943 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 666681003944 HRDC domain; Region: HRDC; pfam00570 666681003945 PAS domain S-box; Region: sensory_box; TIGR00229 666681003946 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 666681003947 putative active site [active] 666681003948 heme pocket [chemical binding]; other site 666681003949 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681003950 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681003951 metal binding site [ion binding]; metal-binding site 666681003952 active site 666681003953 I-site; other site 666681003954 integrase; Provisional; Region: PRK09692 666681003955 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 666681003956 active site 666681003957 Int/Topo IB signature motif; other site 666681003958 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 666681003959 Helix-turn-helix domain; Region: HTH_39; pfam14090 666681003960 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 666681003961 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 666681003962 GAF domain; Region: GAF; pfam01590 666681003963 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; cl17736 666681003964 active site 666681003965 intermolecular recognition site; other site 666681003966 dimerization interface [polypeptide binding]; other site 666681003967 Nitroreductase [Energy production and conversion]; Region: NfnB; COG0778 666681003968 FMN binding site [chemical binding]; other site 666681003969 dimer interface [polypeptide binding]; other site 666681003970 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 666681003971 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 666681003972 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 666681003973 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 666681003974 NADP binding site [chemical binding]; other site 666681003975 active site 666681003976 putative substrate binding site [chemical binding]; other site 666681003977 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 666681003978 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 666681003979 substrate binding site; other site 666681003980 tetramer interface; other site 666681003981 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 666681003982 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 666681003983 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 666681003984 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 666681003985 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 666681003986 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 666681003987 substrate binding site [chemical binding]; other site 666681003988 ligand binding site [chemical binding]; other site 666681003989 Predicted small secreted protein [Function unknown]; Region: COG5510 666681003990 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 666681003991 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 666681003992 substrate binding site [chemical binding]; other site 666681003993 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 666681003994 tartrate dehydrogenase; Region: TTC; TIGR02089 666681003995 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 666681003996 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 666681003997 FimV N-terminal domain; Region: FimV_core; TIGR03505 666681003998 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 666681003999 Cobalt transport protein; Region: CbiQ; cl00463 666681004000 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 666681004001 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 666681004002 dimerization interface 3.5A [polypeptide binding]; other site 666681004003 active site 666681004004 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 666681004005 active site 666681004006 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 666681004007 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 666681004008 pyridoxal 5'-phosphate binding site [chemical binding]; other site 666681004009 catalytic residue [active] 666681004010 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 666681004011 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 666681004012 substrate binding site [chemical binding]; other site 666681004013 active site 666681004014 catalytic residues [active] 666681004015 heterodimer interface [polypeptide binding]; other site 666681004016 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 666681004017 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 666681004018 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 666681004019 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 666681004020 Sporulation related domain; Region: SPOR; pfam05036 666681004021 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 666681004022 Colicin V production protein; Region: Colicin_V; pfam02674 666681004023 amidophosphoribosyltransferase; Provisional; Region: PRK09246 666681004024 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 666681004025 active site 666681004026 tetramer interface [polypeptide binding]; other site 666681004027 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 666681004028 active site 666681004029 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 666681004030 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 666681004031 homodimer interface [polypeptide binding]; other site 666681004032 substrate-cofactor binding pocket; other site 666681004033 pyridoxal 5'-phosphate binding site [chemical binding]; other site 666681004034 catalytic residue [active] 666681004035 DNA gyrase subunit A; Validated; Region: PRK05560 666681004036 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 666681004037 CAP-like domain; other site 666681004038 active site 666681004039 primary dimer interface [polypeptide binding]; other site 666681004040 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 666681004041 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 666681004042 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 666681004043 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 666681004044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 666681004045 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 666681004046 homodimer interface [polypeptide binding]; other site 666681004047 substrate-cofactor binding pocket; other site 666681004048 pyridoxal 5'-phosphate binding site [chemical binding]; other site 666681004049 catalytic residue [active] 666681004050 Chorismate mutase type II; Region: CM_2; cl00693 666681004051 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 666681004052 Prephenate dehydratase; Region: PDT; pfam00800 666681004053 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 666681004054 putative L-Phe binding site [chemical binding]; other site 666681004055 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 666681004056 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 666681004057 pyridoxal 5'-phosphate binding site [chemical binding]; other site 666681004058 homodimer interface [polypeptide binding]; other site 666681004059 catalytic residue [active] 666681004060 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 666681004061 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 666681004062 PqqA family; Region: PqqA; cl15372 666681004063 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 666681004064 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 666681004065 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 666681004066 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 666681004067 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 666681004068 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 666681004069 FeS/SAM binding site; other site 666681004070 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 666681004071 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 666681004072 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 666681004073 putative substrate translocation pore; other site 666681004074 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 666681004075 Ferredoxin [Energy production and conversion]; Region: COG1146 666681004076 4Fe-4S binding domain; Region: Fer4; cl02805 666681004077 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 666681004078 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 666681004079 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 666681004080 CysD dimerization site [polypeptide binding]; other site 666681004081 G1 box; other site 666681004082 putative GEF interaction site [polypeptide binding]; other site 666681004083 GTP/Mg2+ binding site [chemical binding]; other site 666681004084 Switch I region; other site 666681004085 G2 box; other site 666681004086 G3 box; other site 666681004087 Switch II region; other site 666681004088 G4 box; other site 666681004089 G5 box; other site 666681004090 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 666681004091 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 666681004092 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 666681004093 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 666681004094 Active Sites [active] 666681004095 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 666681004096 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 666681004097 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 666681004098 Active Sites [active] 666681004099 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 666681004100 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 666681004101 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 666681004102 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 666681004103 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 666681004104 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 666681004105 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 666681004106 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 666681004107 substrate binding site [chemical binding]; other site 666681004108 dimerization interface [polypeptide binding]; other site 666681004109 Domain of unknown function DUF302; Region: DUF302; cl01364 666681004110 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 666681004111 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 666681004112 Trp docking motif [polypeptide binding]; other site 666681004113 dimer interface [polypeptide binding]; other site 666681004114 active site 666681004115 small subunit binding site [polypeptide binding]; other site 666681004116 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 666681004117 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 666681004118 Walker A motif; other site 666681004119 ATP binding site [chemical binding]; other site 666681004120 Walker B motif; other site 666681004121 arginine finger; other site 666681004122 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 666681004123 Periplasmic binding protein TroA_c. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_c; cd01145 666681004124 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 666681004125 putative ligand binding site [chemical binding]; other site 666681004126 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 666681004127 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 666681004128 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 666681004129 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 666681004130 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 666681004131 dimer interface [polypeptide binding]; other site 666681004132 putative CheW interface [polypeptide binding]; other site 666681004133 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 666681004134 PAS domain; Region: PAS_9; pfam13426 666681004135 putative active site [active] 666681004136 heme pocket [chemical binding]; other site 666681004137 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681004138 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681004139 metal binding site [ion binding]; metal-binding site 666681004140 active site 666681004141 I-site; other site 666681004142 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 666681004143 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 666681004144 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 666681004145 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 666681004146 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 666681004147 Potassium binding sites [ion binding]; other site 666681004148 Cesium cation binding sites [ion binding]; other site 666681004149 Uncharacterized conserved protein [Function unknown]; Region: COG1739 666681004150 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 666681004151 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 666681004152 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 666681004153 Conserved TM helix; Region: TM_helix; pfam05552 666681004154 Conserved TM helix; Region: TM_helix; pfam05552 666681004155 Peptidase family M48; Region: Peptidase_M48; pfam01435 666681004156 Bacterial SH3 domain; Region: SH3_3; cl17532 666681004157 CHASE2 domain; Region: CHASE2; pfam05226 666681004158 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 666681004159 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 666681004160 active site 666681004161 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 666681004162 RmuC family; Region: RmuC; pfam02646 666681004163 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 666681004164 MoaE interaction surface [polypeptide binding]; other site 666681004165 MoeB interaction surface [polypeptide binding]; other site 666681004166 thiocarboxylated glycine; other site 666681004167 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; cd00756 666681004168 MoaE homodimer interface [polypeptide binding]; other site 666681004169 MoaD interaction [polypeptide binding]; other site 666681004170 active site residues [active] 666681004171 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 666681004172 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 666681004173 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 666681004174 RNA binding surface [nucleotide binding]; other site 666681004175 hypothetical protein; Validated; Region: PRK08238 666681004176 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 666681004177 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 666681004178 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 666681004179 FAD binding domain; Region: FAD_binding_4; pfam01565 666681004180 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 666681004181 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 666681004182 NAD(P) binding site [chemical binding]; other site 666681004183 active site 666681004184 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 666681004185 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 666681004186 Methyltransferase domain; Region: Methyltransf_23; pfam13489 666681004187 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 666681004188 S-adenosylmethionine binding site [chemical binding]; other site 666681004189 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 666681004190 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 666681004191 Ligand binding site; other site 666681004192 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 666681004193 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 666681004194 active site 666681004195 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 666681004196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 666681004197 NAD(P) binding site [chemical binding]; other site 666681004198 active site 666681004199 hypothetical protein; Provisional; Region: PRK07233 666681004200 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 666681004201 Predicted membrane protein [Function unknown]; Region: COG2246 666681004202 GtrA-like protein; Region: GtrA; pfam04138 666681004203 GtrA-like protein; Region: GtrA; pfam04138 666681004204 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 666681004205 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 666681004206 Probable Catalytic site; other site 666681004207 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 666681004208 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 666681004209 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 666681004210 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 666681004211 Walker A/P-loop; other site 666681004212 ATP binding site [chemical binding]; other site 666681004213 Q-loop/lid; other site 666681004214 ABC transporter signature motif; other site 666681004215 Walker B; other site 666681004216 D-loop; other site 666681004217 H-loop/switch region; other site 666681004218 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 666681004219 putative carbohydrate binding site [chemical binding]; other site 666681004220 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 666681004221 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 666681004222 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 666681004223 Rhamnan synthesis protein F; Region: RgpF; pfam05045 666681004224 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 666681004225 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 666681004226 Walker A motif; other site 666681004227 ATP binding site [chemical binding]; other site 666681004228 Walker B motif; other site 666681004229 arginine finger; other site 666681004230 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 666681004231 DNA binding site [nucleotide binding] 666681004232 dimer interface [polypeptide binding]; other site 666681004233 active site 666681004234 Int/Topo IB signature motif; other site 666681004235 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 666681004236 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 666681004237 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 666681004238 putative NAD(P) binding site [chemical binding]; other site 666681004239 active site 666681004240 putative substrate binding site [chemical binding]; other site 666681004241 Bacterial sugar transferase; Region: Bac_transf; pfam02397 666681004242 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 666681004243 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 666681004244 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 666681004245 NAD(P) binding site [chemical binding]; other site 666681004246 homodimer interface [polypeptide binding]; other site 666681004247 substrate binding site [chemical binding]; other site 666681004248 active site 666681004249 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 666681004250 active site 666681004251 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 666681004252 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 666681004253 Trp docking motif [polypeptide binding]; other site 666681004254 active site 666681004255 Uncharacterized conserved protein [Function unknown]; Region: COG4095 666681004256 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 666681004257 DNA-binding site [nucleotide binding]; DNA binding site 666681004258 RNA-binding motif; other site 666681004259 translation initiation factor IF-1 666681004260 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 666681004261 rRNA binding site [nucleotide binding]; other site 666681004262 predicted 30S ribosome binding site; other site 666681004263 transcriptional regulator EpsA; Region: EpsA; TIGR03020 666681004264 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 666681004265 DNA binding residues [nucleotide binding] 666681004266 dimerization interface [polypeptide binding]; other site 666681004267 S4 domain; Region: S4_2; pfam13275 666681004268 ribonuclease R; Region: RNase_R; TIGR02063 666681004269 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 666681004270 RNB domain; Region: RNB; pfam00773 666681004271 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 666681004272 RNA binding site [nucleotide binding]; other site 666681004273 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 666681004274 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 666681004275 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 666681004276 malate:quinone oxidoreductase; Validated; Region: PRK05257 666681004277 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 666681004278 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 666681004279 TPR motif; other site 666681004280 binding surface 666681004281 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 666681004282 Secretin and TonB N terminus short domain; Region: STN; pfam07660 666681004283 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 666681004284 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 666681004285 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 666681004286 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 666681004287 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 666681004288 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 666681004289 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 666681004290 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 666681004291 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 666681004292 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 666681004293 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 666681004294 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 666681004295 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 666681004296 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 666681004297 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 666681004298 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 666681004299 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 666681004300 Walker A motif; other site 666681004301 ATP binding site [chemical binding]; other site 666681004302 Walker B motif; other site 666681004303 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 666681004304 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 666681004305 dimer interface [polypeptide binding]; other site 666681004306 conserved gate region; other site 666681004307 putative PBP binding loops; other site 666681004308 ABC-ATPase subunit interface; other site 666681004309 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 666681004310 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 666681004311 Walker A/P-loop; other site 666681004312 ATP binding site [chemical binding]; other site 666681004313 Q-loop/lid; other site 666681004314 ABC transporter signature motif; other site 666681004315 Walker B; other site 666681004316 D-loop; other site 666681004317 H-loop/switch region; other site 666681004318 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 666681004319 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 666681004320 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 666681004321 FAD binding pocket [chemical binding]; other site 666681004322 FAD binding motif [chemical binding]; other site 666681004323 phosphate binding motif [ion binding]; other site 666681004324 beta-alpha-beta structure motif; other site 666681004325 NAD binding pocket [chemical binding]; other site 666681004326 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 666681004327 catalytic loop [active] 666681004328 iron binding site [ion binding]; other site 666681004329 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 666681004330 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 666681004331 [2Fe-2S] cluster binding site [ion binding]; other site 666681004332 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 666681004333 putative alpha subunit interface [polypeptide binding]; other site 666681004334 putative active site [active] 666681004335 putative substrate binding site [chemical binding]; other site 666681004336 Fe binding site [ion binding]; other site 666681004337 Electron transfer flavoprotein domain; Region: ETF; pfam01012 666681004338 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 666681004339 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 666681004340 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 666681004341 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 666681004342 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 666681004343 4Fe-4S binding domain; Region: Fer4; cl02805 666681004344 Cysteine-rich domain; Region: CCG; pfam02754 666681004345 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 666681004346 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 666681004347 putative active site [active] 666681004348 putative FMN binding site [chemical binding]; other site 666681004349 putative substrate binding site [chemical binding]; other site 666681004350 putative catalytic residue [active] 666681004351 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 666681004352 V4R domain; Region: V4R; cl15268 666681004353 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 666681004354 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 666681004355 dimer interface [polypeptide binding]; other site 666681004356 active site 666681004357 glycine-pyridoxal phosphate binding site [chemical binding]; other site 666681004358 folate binding site [chemical binding]; other site 666681004359 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 666681004360 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 666681004361 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 666681004362 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 666681004363 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 666681004364 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 666681004365 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 666681004366 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 666681004367 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 666681004368 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 666681004369 hydroxyglutarate oxidase; Provisional; Region: PRK11728 666681004370 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 666681004371 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 666681004372 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 666681004373 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 666681004374 conserved cys residue [active] 666681004375 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 666681004376 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 666681004377 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 666681004378 tetrameric interface [polypeptide binding]; other site 666681004379 NAD binding site [chemical binding]; other site 666681004380 catalytic residues [active] 666681004381 choline dehydrogenase; Validated; Region: PRK02106 666681004382 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 666681004383 Predicted membrane protein [Function unknown]; Region: COG2860 666681004384 UPF0126 domain; Region: UPF0126; pfam03458 666681004385 UPF0126 domain; Region: UPF0126; pfam03458 666681004386 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 666681004387 PII uridylyl-transferase; Provisional; Region: PRK03059 666681004388 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 666681004389 metal binding triad; other site 666681004390 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 666681004391 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 666681004392 Zn2+ binding site [ion binding]; other site 666681004393 Mg2+ binding site [ion binding]; other site 666681004394 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 666681004395 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 666681004396 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 666681004397 active site 666681004398 HDOD domain; Region: HDOD; pfam08668 666681004399 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 666681004400 rRNA interaction site [nucleotide binding]; other site 666681004401 S8 interaction site; other site 666681004402 putative laminin-1 binding site; other site 666681004403 elongation factor Ts; Provisional; Region: tsf; PRK09377 666681004404 Elongation factor TS; Region: EF_TS; pfam00889 666681004405 Elongation factor TS; Region: EF_TS; pfam00889 666681004406 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 666681004407 putative nucleotide binding site [chemical binding]; other site 666681004408 uridine monophosphate binding site [chemical binding]; other site 666681004409 homohexameric interface [polypeptide binding]; other site 666681004410 ribosome recycling factor; Reviewed; Region: frr; PRK00083 666681004411 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 666681004412 hinge region; other site 666681004413 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 666681004414 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 666681004415 catalytic residue [active] 666681004416 putative FPP diphosphate binding site; other site 666681004417 putative FPP binding hydrophobic cleft; other site 666681004418 dimer interface [polypeptide binding]; other site 666681004419 putative IPP diphosphate binding site; other site 666681004420 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 666681004421 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 666681004422 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 666681004423 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 666681004424 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 666681004425 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 666681004426 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 666681004427 zinc metallopeptidase RseP; Provisional; Region: PRK10779 666681004428 active site 666681004429 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 666681004430 protein binding site [polypeptide binding]; other site 666681004431 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 666681004432 protein binding site [polypeptide binding]; other site 666681004433 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 666681004434 putative substrate binding region [chemical binding]; other site 666681004435 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 666681004436 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 666681004437 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 666681004438 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 666681004439 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 666681004440 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 666681004441 Surface antigen; Region: Bac_surface_Ag; pfam01103 666681004442 periplasmic chaperone; Provisional; Region: PRK10780 666681004443 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 666681004444 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 666681004445 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 666681004446 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 666681004447 trimer interface [polypeptide binding]; other site 666681004448 active site 666681004449 UDP-GlcNAc binding site [chemical binding]; other site 666681004450 lipid binding site [chemical binding]; lipid-binding site 666681004451 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 666681004452 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 666681004453 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 666681004454 active site 666681004455 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 666681004456 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 666681004457 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 666681004458 RNA/DNA hybrid binding site [nucleotide binding]; other site 666681004459 active site 666681004460 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 666681004461 putative SAM binding site [chemical binding]; other site 666681004462 homodimer interface [polypeptide binding]; other site 666681004463 Uncharacterized conserved protein [Function unknown]; Region: COG5316 666681004464 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 666681004465 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 666681004466 Maf-like protein; Region: Maf; pfam02545 666681004467 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 666681004468 active site 666681004469 dimer interface [polypeptide binding]; other site 666681004470 pyruvate carboxylase subunit B; Validated; Region: PRK09282 666681004471 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 666681004472 active site 666681004473 catalytic residues [active] 666681004474 metal binding site [ion binding]; metal-binding site 666681004475 homodimer binding site [polypeptide binding]; other site 666681004476 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 666681004477 carboxyltransferase (CT) interaction site; other site 666681004478 biotinylation site [posttranslational modification]; other site 666681004479 pyruvate carboxylase subunit A; Validated; Region: PRK07178 666681004480 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 666681004481 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 666681004482 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 666681004483 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 666681004484 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 666681004485 putative phosphate acyltransferase; Provisional; Region: PRK05331 666681004486 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 666681004487 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 666681004488 dimer interface [polypeptide binding]; other site 666681004489 active site 666681004490 CoA binding pocket [chemical binding]; other site 666681004491 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 666681004492 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 666681004493 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 666681004494 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 666681004495 NAD(P) binding site [chemical binding]; other site 666681004496 homotetramer interface [polypeptide binding]; other site 666681004497 homodimer interface [polypeptide binding]; other site 666681004498 active site 666681004499 acyl carrier protein; Provisional; Region: acpP; PRK00982 666681004500 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 666681004501 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 666681004502 dimer interface [polypeptide binding]; other site 666681004503 active site 666681004504 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 666681004505 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 666681004506 pyridoxal 5'-phosphate binding site [chemical binding]; other site 666681004507 catalytic residue [active] 666681004508 YceG-like family; Region: YceG; pfam02618 666681004509 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 666681004510 dimerization interface [polypeptide binding]; other site 666681004511 thymidylate kinase; Validated; Region: tmk; PRK00698 666681004512 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 666681004513 TMP-binding site; other site 666681004514 ATP-binding site [chemical binding]; other site 666681004515 formaldehyde-activating enzyme; Region: one_C_fae; TIGR03126 666681004516 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 666681004517 Ligand Binding Site [chemical binding]; other site 666681004518 formate dehydrogenase; Provisional; Region: PRK07574 666681004519 NAD-dependent Formate Dehydrogenase (FDH); Region: FDH; cd05302 666681004520 dimerization interface [polypeptide binding]; other site 666681004521 ligand binding site [chemical binding]; other site 666681004522 NAD binding site [chemical binding]; other site 666681004523 catalytic site [active] 666681004524 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 666681004525 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 666681004526 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 666681004527 DNA polymerase III subunit delta'; Validated; Region: PRK06964 666681004528 PilZ domain; Region: PilZ; cl01260 666681004529 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 666681004530 active site 666681004531 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 666681004532 putative hydrolase; Provisional; Region: PRK02113 666681004533 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 666681004534 Putative regulatory protein; Region: CxxC_CXXC_SSSS; smart00834 666681004535 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 666681004536 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 666681004537 putative ligand binding site [chemical binding]; other site 666681004538 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 666681004539 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 666681004540 TM-ABC transporter signature motif; other site 666681004541 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 666681004542 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 666681004543 TM-ABC transporter signature motif; other site 666681004544 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 666681004545 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 666681004546 Walker A/P-loop; other site 666681004547 ATP binding site [chemical binding]; other site 666681004548 Q-loop/lid; other site 666681004549 ABC transporter signature motif; other site 666681004550 Walker B; other site 666681004551 D-loop; other site 666681004552 H-loop/switch region; other site 666681004553 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 666681004554 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 666681004555 Walker A/P-loop; other site 666681004556 ATP binding site [chemical binding]; other site 666681004557 Q-loop/lid; other site 666681004558 ABC transporter signature motif; other site 666681004559 Walker B; other site 666681004560 D-loop; other site 666681004561 H-loop/switch region; other site 666681004562 UreD urease accessory protein; Region: UreD; pfam01774 666681004563 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 666681004564 alpha-gamma subunit interface [polypeptide binding]; other site 666681004565 beta-gamma subunit interface [polypeptide binding]; other site 666681004566 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 666681004567 gamma-beta subunit interface [polypeptide binding]; other site 666681004568 alpha-beta subunit interface [polypeptide binding]; other site 666681004569 urease subunit alpha; Reviewed; Region: ureC; PRK13207 666681004570 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 666681004571 subunit interactions [polypeptide binding]; other site 666681004572 active site 666681004573 flap region; other site 666681004574 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 666681004575 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 666681004576 dimer interface [polypeptide binding]; other site 666681004577 catalytic residues [active] 666681004578 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 666681004579 UreF; Region: UreF; pfam01730 666681004580 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 666681004581 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 666681004582 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 666681004583 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 666681004584 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 666681004585 dimer interface [polypeptide binding]; other site 666681004586 phosphorylation site [posttranslational modification] 666681004587 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 666681004588 ATP binding site [chemical binding]; other site 666681004589 Mg2+ binding site [ion binding]; other site 666681004590 G-X-G motif; other site 666681004591 Response regulator receiver domain; Region: Response_reg; pfam00072 666681004592 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 666681004593 active site 666681004594 phosphorylation site [posttranslational modification] 666681004595 intermolecular recognition site; other site 666681004596 dimerization interface [polypeptide binding]; other site 666681004597 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 666681004598 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 666681004599 active site 666681004600 phosphorylation site [posttranslational modification] 666681004601 intermolecular recognition site; other site 666681004602 dimerization interface [polypeptide binding]; other site 666681004603 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 666681004604 DNA binding residues [nucleotide binding] 666681004605 dimerization interface [polypeptide binding]; other site 666681004606 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 666681004607 HD domain; Region: HD_4; pfam13328 666681004608 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 666681004609 synthetase active site [active] 666681004610 NTP binding site [chemical binding]; other site 666681004611 metal binding site [ion binding]; metal-binding site 666681004612 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 666681004613 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 666681004614 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 666681004615 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 666681004616 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 666681004617 Moco binding site; other site 666681004618 metal coordination site [ion binding]; other site 666681004619 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 666681004620 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 666681004621 active site 666681004622 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 666681004623 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 666681004624 nucleotide binding pocket [chemical binding]; other site 666681004625 K-X-D-G motif; other site 666681004626 catalytic site [active] 666681004627 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 666681004628 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 666681004629 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 666681004630 Dimer interface [polypeptide binding]; other site 666681004631 BRCT sequence motif; other site 666681004632 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 666681004633 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 666681004634 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 666681004635 Walker A/P-loop; other site 666681004636 ATP binding site [chemical binding]; other site 666681004637 Q-loop/lid; other site 666681004638 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 666681004639 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 666681004640 ABC transporter signature motif; other site 666681004641 Walker B; other site 666681004642 D-loop; other site 666681004643 H-loop/switch region; other site 666681004644 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 666681004645 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 666681004646 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 666681004647 DNA binding residues [nucleotide binding] 666681004648 Integrase core domain; Region: rve; pfam00665 666681004649 transposase/IS protein; Provisional; Region: PRK09183 666681004650 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 666681004651 Walker A motif; other site 666681004652 ATP binding site [chemical binding]; other site 666681004653 Walker B motif; other site 666681004654 arginine finger; other site 666681004655 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 666681004656 active site 666681004657 catalytic residues [active] 666681004658 metal binding site [ion binding]; metal-binding site 666681004659 5'-methylthioadenosine phosphorylase; Validated; Region: PRK09136 666681004660 transcriptional regulator NarL; Provisional; Region: PRK10651 666681004661 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 666681004662 active site 666681004663 phosphorylation site [posttranslational modification] 666681004664 intermolecular recognition site; other site 666681004665 dimerization interface [polypeptide binding]; other site 666681004666 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 666681004667 dimerization interface [polypeptide binding]; other site 666681004668 DNA binding residues [nucleotide binding] 666681004669 Histidine kinase; Region: HisKA_3; pfam07730 666681004670 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 666681004671 ATP binding site [chemical binding]; other site 666681004672 Mg2+ binding site [ion binding]; other site 666681004673 G-X-G motif; other site 666681004674 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 666681004675 PAS domain; Region: PAS_9; pfam13426 666681004676 putative active site [active] 666681004677 heme pocket [chemical binding]; other site 666681004678 PAS fold; Region: PAS; pfam00989 666681004679 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 666681004680 putative active site [active] 666681004681 heme pocket [chemical binding]; other site 666681004682 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 666681004683 PAS fold; Region: PAS_3; pfam08447 666681004684 putative active site [active] 666681004685 heme pocket [chemical binding]; other site 666681004686 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 666681004687 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 666681004688 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 666681004689 FMN-binding pocket [chemical binding]; other site 666681004690 flavin binding motif; other site 666681004691 phosphate binding motif [ion binding]; other site 666681004692 beta-alpha-beta structure motif; other site 666681004693 NAD binding pocket [chemical binding]; other site 666681004694 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 666681004695 catalytic loop [active] 666681004696 iron binding site [ion binding]; other site 666681004697 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 666681004698 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 666681004699 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 666681004700 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 666681004701 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 666681004702 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 666681004703 Ligand binding site [chemical binding]; other site 666681004704 Electron transfer flavoprotein domain; Region: ETF; pfam01012 666681004705 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 666681004706 4Fe-4S binding domain; Region: Fer4; cl02805 666681004707 Cysteine-rich domain; Region: CCG; pfam02754 666681004708 Trimethylamine dehydrogenase (TMADH) and histamine dehydrogenase (HD) FMN-binding domain. TMADH is an iron-sulfur flavoprotein that catalyzes the oxidative demethylation of trimethylamine to form dimethylamine and formaldehyde. The protein forms a...; Region: TMADH_HD_FMN; cd02929 666681004709 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 666681004710 FMN binding site [chemical binding]; other site 666681004711 active site 666681004712 homodimer interface [polypeptide binding]; other site 666681004713 putative catalytic residue [active] 666681004714 4Fe-4S cluster binding site [ion binding]; other site 666681004715 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 666681004716 Amino acid permease; Region: AA_permease_2; pfam13520 666681004717 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 666681004718 heme-binding site [chemical binding]; other site 666681004719 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 666681004720 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 666681004721 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 666681004722 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 666681004723 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 666681004724 dimerization interface [polypeptide binding]; other site 666681004725 active site 666681004726 putative GTP cyclohydrolase; Provisional; Region: PRK13674 666681004727 ethanolamine permease; Region: 2A0305; TIGR00908 666681004728 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 666681004729 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 666681004730 active site 666681004731 FMN binding site [chemical binding]; other site 666681004732 substrate binding site [chemical binding]; other site 666681004733 3Fe-4S cluster binding site [ion binding]; other site 666681004734 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 666681004735 domain_subunit interface; other site 666681004736 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 666681004737 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 666681004738 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 666681004739 putative active site [active] 666681004740 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 666681004741 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 666681004742 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 666681004743 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 666681004744 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 666681004745 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 666681004746 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 666681004747 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 666681004748 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 666681004749 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 666681004750 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 666681004751 N-formylglutamate amidohydrolase; Region: FGase; cl01522 666681004752 Formaldehyde-activating enzyme (Fae); Region: Fae; pfam08714 666681004753 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 666681004754 non-specific DNA binding site [nucleotide binding]; other site 666681004755 salt bridge; other site 666681004756 sequence-specific DNA binding site [nucleotide binding]; other site 666681004757 Cupin domain; Region: Cupin_2; pfam07883 666681004758 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 666681004759 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 666681004760 Coenzyme A binding pocket [chemical binding]; other site 666681004761 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 666681004762 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 666681004763 active site lid residues [active] 666681004764 substrate binding pocket [chemical binding]; other site 666681004765 catalytic residues [active] 666681004766 substrate-Mg2+ binding site; other site 666681004767 aspartate-rich region 1; other site 666681004768 aspartate-rich region 2; other site 666681004769 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 666681004770 active site lid residues [active] 666681004771 substrate binding pocket [chemical binding]; other site 666681004772 catalytic residues [active] 666681004773 substrate-Mg2+ binding site; other site 666681004774 aspartate-rich region 1; other site 666681004775 aspartate-rich region 2; other site 666681004776 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 666681004777 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 666681004778 DNA repair protein RadA; Provisional; Region: PRK11823 666681004779 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 666681004780 Walker A motif/ATP binding site; other site 666681004781 ATP binding site [chemical binding]; other site 666681004782 Walker B motif; other site 666681004783 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 666681004784 replicative DNA helicase; Region: DnaB; TIGR00665 666681004785 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 666681004786 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 666681004787 Walker A motif; other site 666681004788 ATP binding site [chemical binding]; other site 666681004789 Walker B motif; other site 666681004790 DNA binding loops [nucleotide binding] 666681004791 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 666681004792 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 666681004793 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 666681004794 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 666681004795 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 666681004796 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 666681004797 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 666681004798 excinuclease ABC subunit B; Provisional; Region: PRK05298 666681004799 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 666681004800 ATP binding site [chemical binding]; other site 666681004801 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 666681004802 putative Mg++ binding site [ion binding]; other site 666681004803 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 666681004804 nucleotide binding region [chemical binding]; other site 666681004805 ATP-binding site [chemical binding]; other site 666681004806 Ultra-violet resistance protein B; Region: UvrB; pfam12344 666681004807 UvrB/uvrC motif; Region: UVR; pfam02151 666681004808 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 666681004809 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 666681004810 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 666681004811 TPR repeat; Region: TPR_11; pfam13414 666681004812 binding surface 666681004813 aspartate aminotransferase; Provisional; Region: PRK05764 666681004814 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 666681004815 pyridoxal 5'-phosphate binding site [chemical binding]; other site 666681004816 homodimer interface [polypeptide binding]; other site 666681004817 catalytic residue [active] 666681004818 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 666681004819 HSP70 interaction site [polypeptide binding]; other site 666681004820 The (Largely Archaeal Putative) Hydrophobe/Amphiphile Efflux-3 (HAE3) Family; Region: 2A067; TIGR00921 666681004821 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 666681004822 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; cd01610 666681004823 active site 666681004824 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 666681004825 hypothetical protein; Validated; Region: PRK00029 666681004826 Uncharacterized conserved protein [Function unknown]; Region: COG0397 666681004827 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 666681004828 The adenylation (A) domain of siderophore-synthesizing nonribosomal peptide synthetases (NRPS); Region: A_NRPS_SidN3_like; cd05918 666681004829 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 666681004830 acyl-activating enzyme (AAE) consensus motif; other site 666681004831 AMP binding site [chemical binding]; other site 666681004832 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 666681004833 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 666681004834 putative trimer interface [polypeptide binding]; other site 666681004835 putative CoA binding site [chemical binding]; other site 666681004836 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 666681004837 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 666681004838 putative trimer interface [polypeptide binding]; other site 666681004839 putative CoA binding site [chemical binding]; other site 666681004840 cyanophycin synthetase; Provisional; Region: PRK14016 666681004841 ATP-grasp domain; Region: ATP-grasp_4; cl17255 666681004842 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 666681004843 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 666681004844 cyanophycin synthetase; Provisional; Region: PRK14016 666681004845 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 666681004846 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 666681004847 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 666681004848 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 666681004849 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 666681004850 Walker A/P-loop; other site 666681004851 ATP binding site [chemical binding]; other site 666681004852 Q-loop/lid; other site 666681004853 ABC transporter signature motif; other site 666681004854 Walker B; other site 666681004855 D-loop; other site 666681004856 H-loop/switch region; other site 666681004857 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 666681004858 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 666681004859 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 666681004860 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 666681004861 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 666681004862 HlyD family secretion protein; Region: HlyD_3; pfam13437 666681004863 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 666681004864 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 666681004865 dimerization interface [polypeptide binding]; other site 666681004866 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 666681004867 GAF domain; Region: GAF; pfam01590 666681004868 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 666681004869 PAS domain; Region: PAS_9; pfam13426 666681004870 putative active site [active] 666681004871 heme pocket [chemical binding]; other site 666681004872 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681004873 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681004874 metal binding site [ion binding]; metal-binding site 666681004875 active site 666681004876 I-site; other site 666681004877 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 666681004878 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 666681004879 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 666681004880 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 666681004881 N-terminal plug; other site 666681004882 ligand-binding site [chemical binding]; other site 666681004883 uncharacterized domain; Region: TIGR00702 666681004884 YcaO-like family; Region: YcaO; pfam02624 666681004885 RNA polymerase sigma factor SigK; Reviewed; Region: PRK09646 666681004886 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 666681004887 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 666681004888 DNA binding residues [nucleotide binding] 666681004889 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 666681004890 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 666681004891 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 666681004892 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 666681004893 S-adenosylmethionine binding site [chemical binding]; other site 666681004894 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 666681004895 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 666681004896 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 666681004897 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 666681004898 Fatty acid desaturase; Region: FA_desaturase; pfam00487 666681004899 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 666681004900 Di-iron ligands [ion binding]; other site 666681004901 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 666681004902 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 666681004903 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 666681004904 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 666681004905 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 666681004906 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 666681004907 S-adenosylmethionine binding site [chemical binding]; other site 666681004908 Domain of unknown function (DUF386); Region: DUF386; cl01047 666681004909 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 666681004910 TPR motif; other site 666681004911 TPR repeat; Region: TPR_11; pfam13414 666681004912 binding surface 666681004913 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 666681004914 binding surface 666681004915 TPR motif; other site 666681004916 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 666681004917 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 666681004918 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 666681004919 Walker A motif; other site 666681004920 ATP binding site [chemical binding]; other site 666681004921 Walker B motif; other site 666681004922 EamA-like transporter family; Region: EamA; pfam00892 666681004923 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 666681004924 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 666681004925 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 666681004926 pyridoxal 5'-phosphate binding site [chemical binding]; other site 666681004927 homodimer interface [polypeptide binding]; other site 666681004928 catalytic residue [active] 666681004929 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 666681004930 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 666681004931 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 666681004932 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 666681004933 ATP binding site [chemical binding]; other site 666681004934 Mg2+ binding site [ion binding]; other site 666681004935 G-X-G motif; other site 666681004936 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 666681004937 ATP binding site [chemical binding]; other site 666681004938 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 666681004939 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 666681004940 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 666681004941 putative CheW interface [polypeptide binding]; other site 666681004942 DEAD-like helicases superfamily; Region: DEXDc; smart00487 666681004943 DEAD/DEAH box helicase; Region: DEAD; pfam00270 666681004944 ATP binding site [chemical binding]; other site 666681004945 putative Mg++ binding site [ion binding]; other site 666681004946 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 666681004947 nucleotide binding region [chemical binding]; other site 666681004948 ATP-binding site [chemical binding]; other site 666681004949 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 666681004950 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 666681004951 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 666681004952 Beta-Casp domain; Region: Beta-Casp; smart01027 666681004953 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 666681004954 AMIN domain; Region: AMIN; pfam11741 666681004955 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 666681004956 active site 666681004957 metal binding site [ion binding]; metal-binding site 666681004958 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 666681004959 epoxyqueuosine reductase; Region: TIGR00276 666681004960 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 666681004961 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 666681004962 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 666681004963 FOG: CBS domain [General function prediction only]; Region: COG0517 666681004964 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681004965 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681004966 metal binding site [ion binding]; metal-binding site 666681004967 active site 666681004968 I-site; other site 666681004969 CHASE domain; Region: CHASE; pfam03924 666681004970 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 666681004971 PAS domain; Region: PAS_9; pfam13426 666681004972 putative active site [active] 666681004973 heme pocket [chemical binding]; other site 666681004974 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 666681004975 GAF domain; Region: GAF_3; pfam13492 666681004976 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 666681004977 PAS domain; Region: PAS_9; pfam13426 666681004978 putative active site [active] 666681004979 heme pocket [chemical binding]; other site 666681004980 PAS fold; Region: PAS_4; pfam08448 666681004981 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 666681004982 putative active site [active] 666681004983 heme pocket [chemical binding]; other site 666681004984 PAS fold; Region: PAS_3; pfam08447 666681004985 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 666681004986 PAS domain; Region: PAS_9; pfam13426 666681004987 putative active site [active] 666681004988 heme pocket [chemical binding]; other site 666681004989 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681004990 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681004991 metal binding site [ion binding]; metal-binding site 666681004992 active site 666681004993 I-site; other site 666681004994 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 666681004995 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 666681004996 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 666681004997 nucleotide binding site [chemical binding]; other site 666681004998 4-alpha-glucanotransferase; Provisional; Region: PRK14508 666681004999 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 666681005000 N-terminal catalytic domain of thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU; cd10796 666681005001 putative active site [active] 666681005002 catalytic site [active] 666681005003 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 666681005004 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 666681005005 ligand binding site; other site 666681005006 oligomer interface; other site 666681005007 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 666681005008 dimer interface [polypeptide binding]; other site 666681005009 N-terminal domain interface [polypeptide binding]; other site 666681005010 sulfate 1 binding site; other site 666681005011 glycogen branching enzyme; Provisional; Region: PRK05402 666681005012 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 666681005013 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 666681005014 active site 666681005015 catalytic site [active] 666681005016 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 666681005017 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 666681005018 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 666681005019 active site 666681005020 dimer interface [polypeptide binding]; other site 666681005021 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 666681005022 dimer interface [polypeptide binding]; other site 666681005023 active site 666681005024 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 666681005025 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 666681005026 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 666681005027 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681005028 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681005029 metal binding site [ion binding]; metal-binding site 666681005030 active site 666681005031 I-site; other site 666681005032 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 666681005033 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 666681005034 tandem repeat interface [polypeptide binding]; other site 666681005035 oligomer interface [polypeptide binding]; other site 666681005036 active site residues [active] 666681005037 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 666681005038 iron-sulfur cluster [ion binding]; other site 666681005039 [2Fe-2S] cluster binding site [ion binding]; other site 666681005040 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 666681005041 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 666681005042 motif II; other site 666681005043 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 666681005044 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 666681005045 RNA binding surface [nucleotide binding]; other site 666681005046 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 666681005047 active site 666681005048 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 666681005049 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 666681005050 homodimer interface [polypeptide binding]; other site 666681005051 oligonucleotide binding site [chemical binding]; other site 666681005052 chromosome condensation membrane protein; Provisional; Region: PRK14196 666681005053 glycogen synthase; Provisional; Region: glgA; PRK00654 666681005054 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 666681005055 ADP-binding pocket [chemical binding]; other site 666681005056 homodimer interface [polypeptide binding]; other site 666681005057 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 666681005058 catalytic site [active] 666681005059 putative active site [active] 666681005060 putative substrate binding site [chemical binding]; other site 666681005061 dimer interface [polypeptide binding]; other site 666681005062 Peptidase family M48; Region: Peptidase_M48; pfam01435 666681005063 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 666681005064 GTPase RsgA; Reviewed; Region: PRK00098 666681005065 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 666681005066 RNA binding site [nucleotide binding]; other site 666681005067 homodimer interface [polypeptide binding]; other site 666681005068 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 666681005069 GTPase/Zn-binding domain interface [polypeptide binding]; other site 666681005070 GTP/Mg2+ binding site [chemical binding]; other site 666681005071 G4 box; other site 666681005072 G5 box; other site 666681005073 G1 box; other site 666681005074 Switch I region; other site 666681005075 G2 box; other site 666681005076 G3 box; other site 666681005077 Switch II region; other site 666681005078 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 666681005079 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 666681005080 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 666681005081 Zn2+ binding site [ion binding]; other site 666681005082 Mg2+ binding site [ion binding]; other site 666681005083 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 666681005084 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 666681005085 active site 666681005086 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 666681005087 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 666681005088 NAD binding site [chemical binding]; other site 666681005089 substrate binding site [chemical binding]; other site 666681005090 homodimer interface [polypeptide binding]; other site 666681005091 active site 666681005092 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 666681005093 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 666681005094 active site 666681005095 catalytic site [active] 666681005096 substrate binding site [chemical binding]; other site 666681005097 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 666681005098 RNA/DNA hybrid binding site [nucleotide binding]; other site 666681005099 active site 666681005100 Methyltransferase domain; Region: Methyltransf_11; pfam08241 666681005101 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 666681005102 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 666681005103 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 666681005104 N-acetyl-D-glucosamine binding site [chemical binding]; other site 666681005105 catalytic residue [active] 666681005106 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 666681005107 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 666681005108 The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold; Region: PBP2_AppA_like; cd08514 666681005109 peptide binding site [polypeptide binding]; other site 666681005110 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 666681005111 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 666681005112 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 666681005113 dimer interface [polypeptide binding]; other site 666681005114 conserved gate region; other site 666681005115 putative PBP binding loops; other site 666681005116 ABC-ATPase subunit interface; other site 666681005117 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 666681005118 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 666681005119 dimer interface [polypeptide binding]; other site 666681005120 conserved gate region; other site 666681005121 putative PBP binding loops; other site 666681005122 ABC-ATPase subunit interface; other site 666681005123 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 666681005124 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 666681005125 NAD binding site [chemical binding]; other site 666681005126 homotetramer interface [polypeptide binding]; other site 666681005127 homodimer interface [polypeptide binding]; other site 666681005128 substrate binding site [chemical binding]; other site 666681005129 active site 666681005130 periplasmic folding chaperone; Provisional; Region: PRK10788 666681005131 SurA N-terminal domain; Region: SurA_N_3; cl07813 666681005132 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 666681005133 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 666681005134 IHF dimer interface [polypeptide binding]; other site 666681005135 IHF - DNA interface [nucleotide binding]; other site 666681005136 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 666681005137 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 666681005138 Walker A motif; other site 666681005139 ATP binding site [chemical binding]; other site 666681005140 Walker B motif; other site 666681005141 arginine finger; other site 666681005142 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 666681005143 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 666681005144 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 666681005145 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 666681005146 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 666681005147 Walker A motif; other site 666681005148 ATP binding site [chemical binding]; other site 666681005149 Walker B motif; other site 666681005150 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 666681005151 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 666681005152 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 666681005153 oligomer interface [polypeptide binding]; other site 666681005154 active site residues [active] 666681005155 trigger factor; Provisional; Region: tig; PRK01490 666681005156 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 666681005157 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 666681005158 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 666681005159 Outer membrane efflux protein; Region: OEP; pfam02321 666681005160 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 666681005161 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 666681005162 Protein export membrane protein; Region: SecD_SecF; cl14618 666681005163 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cd00488 666681005164 aromatic arch; other site 666681005165 DCoH dimer interaction site [polypeptide binding]; other site 666681005166 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 666681005167 DCoH tetramer interaction site [polypeptide binding]; other site 666681005168 substrate binding site [chemical binding]; other site 666681005169 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 666681005170 nucleotide binding site [chemical binding]; other site 666681005171 substrate binding site [chemical binding]; other site 666681005172 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 666681005173 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 666681005174 chorismate binding enzyme; Region: Chorismate_bind; cl10555 666681005175 Predicted transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: COG1548; cl00668 666681005176 Predicted ATP-utilizing enzyme (ATP-grasp superfamily) [General function prediction only]; Region: COG1821 666681005177 ATP-grasp domain; Region: ATP-grasp_4; cl17255 666681005178 hisA/hisF family protein; Region: hisAF_rel; TIGR00734 666681005179 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF). The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an...; Region: HisA_HisF; cd04723 666681005180 active site 666681005181 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 666681005182 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 666681005183 phosphate binding site [ion binding]; other site 666681005184 transaldolase-like protein; Provisional; Region: PTZ00411 666681005185 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 666681005186 active site 666681005187 dimer interface [polypeptide binding]; other site 666681005188 catalytic residue [active] 666681005189 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 666681005190 CHASE2 domain; Region: CHASE2; pfam05226 666681005191 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 666681005192 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 666681005193 dimer interface [polypeptide binding]; other site 666681005194 phosphorylation site [posttranslational modification] 666681005195 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 666681005196 ATP binding site [chemical binding]; other site 666681005197 Mg2+ binding site [ion binding]; other site 666681005198 G-X-G motif; other site 666681005199 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 666681005200 FecR protein; Region: FecR; pfam04773 666681005201 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 666681005202 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 666681005203 active site 666681005204 phosphorylation site [posttranslational modification] 666681005205 intermolecular recognition site; other site 666681005206 dimerization interface [polypeptide binding]; other site 666681005207 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 666681005208 DNA binding site [nucleotide binding] 666681005209 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; pfam01874 666681005210 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 666681005211 ATP-grasp domain; Region: ATP-grasp_4; cl17255 666681005212 N(5),N(10)-methenyltetrahydromethanopterin cyclohydrolase; Provisional; Region: PRK02264 666681005213 Methenyltetrahydromethanopterin (methenyl-H4MPT) cyclohydrolase (MCH). MCH is a cytoplasmic enzyme that has been identified in methanogenic archaea, sulfate- reducing archaea, and methylotrophic bacteria. It catalyzes the reversible formation of N(5), N...; Region: MCH; cd00545 666681005214 trimer interface I [polypeptide binding]; other site 666681005215 putative substrate binding pocket [chemical binding]; other site 666681005216 trimer interface II [polypeptide binding]; other site 666681005217 Predicted ATP-dependent carboligase related to biotin carboxylase [General function prediction only]; Region: COG2232 666681005218 ATP-grasp domain; Region: ATP-grasp_4; cl17255 666681005219 Methylene-tetrahydromethanopterin dehydrogenase, N-terminal; Region: Mpt_N; pfam09176 666681005220 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 666681005221 NAD(P) binding pocket [chemical binding]; other site 666681005222 Predicted archaeal sugar kinases [General function prediction only]; Region: COG1907 666681005223 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 666681005224 phosphoenolpyruvate synthase; Validated; Region: PRK06464 666681005225 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 666681005226 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 666681005227 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 666681005228 PEP synthetase regulatory protein; Provisional; Region: PRK05339 666681005229 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 666681005230 catalytic residues [active] 666681005231 dimer interface [polypeptide binding]; other site 666681005232 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 666681005233 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 666681005234 Chromate transporter; Region: Chromate_transp; pfam02417 666681005235 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 666681005236 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 666681005237 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 666681005238 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 666681005239 conserved hypothetical protein, PP_1857 family; Region: efp_adjacent_2; TIGR03837 666681005240 elongation factor P; Validated; Region: PRK00529 666681005241 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 666681005242 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 666681005243 RNA binding site [nucleotide binding]; other site 666681005244 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 666681005245 RNA binding site [nucleotide binding]; other site 666681005246 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 666681005247 tetramer (dimer of dimers) interface [polypeptide binding]; other site 666681005248 active site 666681005249 dimer interface [polypeptide binding]; other site 666681005250 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 666681005251 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 666681005252 substrate binding pocket [chemical binding]; other site 666681005253 membrane-bound complex binding site; other site 666681005254 hinge residues; other site 666681005255 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 666681005256 N-acetyl-D-glucosamine binding site [chemical binding]; other site 666681005257 catalytic residue [active] 666681005258 seryl-tRNA synthetase; Provisional; Region: PRK05431 666681005259 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 666681005260 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 666681005261 dimer interface [polypeptide binding]; other site 666681005262 active site 666681005263 motif 1; other site 666681005264 motif 2; other site 666681005265 motif 3; other site 666681005266 recombination factor protein RarA; Reviewed; Region: PRK13342 666681005267 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 666681005268 Walker A motif; other site 666681005269 ATP binding site [chemical binding]; other site 666681005270 Walker B motif; other site 666681005271 arginine finger; other site 666681005272 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 666681005273 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 666681005274 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 666681005275 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 666681005276 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 666681005277 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 666681005278 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 666681005279 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 666681005280 dimerization interface [polypeptide binding]; other site 666681005281 DPS ferroxidase diiron center [ion binding]; other site 666681005282 ion pore; other site 666681005283 thioredoxin reductase; Provisional; Region: PRK10262 666681005284 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 666681005285 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 666681005286 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 666681005287 Smr domain; Region: Smr; pfam01713 666681005288 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 666681005289 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 666681005290 putative hydrophobic ligand binding site [chemical binding]; other site 666681005291 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 666681005292 SnoaL-like domain; Region: SnoaL_2; pfam12680 666681005293 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 666681005294 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 666681005295 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 666681005296 Walker A/P-loop; other site 666681005297 ATP binding site [chemical binding]; other site 666681005298 Q-loop/lid; other site 666681005299 ABC transporter signature motif; other site 666681005300 Walker B; other site 666681005301 D-loop; other site 666681005302 H-loop/switch region; other site 666681005303 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 666681005304 homotrimer interaction site [polypeptide binding]; other site 666681005305 zinc binding site [ion binding]; other site 666681005306 CDP-binding sites; other site 666681005307 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 666681005308 substrate binding site; other site 666681005309 dimer interface; other site 666681005310 transcriptional regulator EpsA; Region: EpsA; TIGR03020 666681005311 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 666681005312 DNA binding residues [nucleotide binding] 666681005313 dimerization interface [polypeptide binding]; other site 666681005314 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 666681005315 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 666681005316 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 666681005317 Iron permease FTR1 family; Region: FTR1; cl00475 666681005318 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 666681005319 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 666681005320 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 666681005321 dimerization interface [polypeptide binding]; other site 666681005322 domain crossover interface; other site 666681005323 redox-dependent activation switch; other site 666681005324 Pilin (bacterial filament); Region: Pilin; pfam00114 666681005325 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 666681005326 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 666681005327 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 666681005328 amphipathic channel; other site 666681005329 Asn-Pro-Ala signature motifs; other site 666681005330 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 666681005331 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 666681005332 active site 666681005333 uracil binding [chemical binding]; other site 666681005334 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 666681005335 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 666681005336 substrate binding pocket [chemical binding]; other site 666681005337 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 666681005338 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 666681005339 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 666681005340 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 666681005341 putative active site [active] 666681005342 heme pocket [chemical binding]; other site 666681005343 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 666681005344 putative active site [active] 666681005345 heme pocket [chemical binding]; other site 666681005346 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681005347 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681005348 metal binding site [ion binding]; metal-binding site 666681005349 active site 666681005350 I-site; other site 666681005351 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 666681005352 CheW-like domain; Region: CheW; pfam01584 666681005353 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 666681005354 TraB family; Region: TraB; pfam01963 666681005355 hypothetical protein; Provisional; Region: PRK01254 666681005356 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 666681005357 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 666681005358 hypothetical protein; Provisional; Region: PRK09272 666681005359 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 666681005360 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 666681005361 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 666681005362 Outer membrane efflux protein; Region: OEP; pfam02321 666681005363 Outer membrane efflux protein; Region: OEP; pfam02321 666681005364 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 666681005365 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 666681005366 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 666681005367 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 666681005368 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 666681005369 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 666681005370 putative NAD(P) binding site [chemical binding]; other site 666681005371 active site 666681005372 Predicted transcriptional regulators [Transcription]; Region: COG1510 666681005373 MarR family; Region: MarR_2; pfam12802 666681005374 Protein of unknown function, DUF393; Region: DUF393; pfam04134 666681005375 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 666681005376 prephenate dehydrogenase; Validated; Region: PRK08507 666681005377 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 666681005378 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 666681005379 hinge; other site 666681005380 active site 666681005381 cytidylate kinase; Provisional; Region: cmk; PRK00023 666681005382 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 666681005383 CMP-binding site; other site 666681005384 The sites determining sugar specificity; other site 666681005385 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 666681005386 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 666681005387 RNA binding site [nucleotide binding]; other site 666681005388 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 666681005389 RNA binding site [nucleotide binding]; other site 666681005390 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 666681005391 RNA binding site [nucleotide binding]; other site 666681005392 S1_RPS1_repeat_ec4: 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_ec4; cd05689 666681005393 RNA binding site [nucleotide binding]; other site 666681005394 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 666681005395 RNA binding site [nucleotide binding]; other site 666681005396 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 666681005397 IHF dimer interface [polypeptide binding]; other site 666681005398 IHF - DNA interface [nucleotide binding]; other site 666681005399 tetratricopeptide repeat protein; Provisional; Region: PRK11788 666681005400 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 666681005401 binding surface 666681005402 TPR motif; other site 666681005403 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 666681005404 active site 666681005405 dimer interface [polypeptide binding]; other site 666681005406 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 666681005407 Helix-hairpin-helix motif; Region: HHH; pfam00633 666681005408 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 666681005409 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 666681005410 active site 666681005411 HIGH motif; other site 666681005412 KMSKS motif; other site 666681005413 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 666681005414 tRNA binding surface [nucleotide binding]; other site 666681005415 anticodon binding site; other site 666681005416 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 666681005417 dimer interface [polypeptide binding]; other site 666681005418 putative tRNA-binding site [nucleotide binding]; other site 666681005419 Domain of unknown function DUF59; Region: DUF59; pfam01883 666681005420 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 666681005421 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 666681005422 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 666681005423 apolar tunnel; other site 666681005424 heme binding site [chemical binding]; other site 666681005425 dimerization interface [polypeptide binding]; other site 666681005426 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 666681005427 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 666681005428 ATP-grasp domain; Region: ATP-grasp; pfam02222 666681005429 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 666681005430 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 666681005431 active site 666681005432 phosphorylation site [posttranslational modification] 666681005433 intermolecular recognition site; other site 666681005434 dimerization interface [polypeptide binding]; other site 666681005435 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 666681005436 Walker A motif; other site 666681005437 ATP binding site [chemical binding]; other site 666681005438 Walker B motif; other site 666681005439 arginine finger; other site 666681005440 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 666681005441 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 666681005442 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 666681005443 N-terminal plug; other site 666681005444 ligand-binding site [chemical binding]; other site 666681005445 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 666681005446 FtsX-like permease family; Region: FtsX; pfam02687 666681005447 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 666681005448 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 666681005449 Walker A/P-loop; other site 666681005450 ATP binding site [chemical binding]; other site 666681005451 Q-loop/lid; other site 666681005452 ABC transporter signature motif; other site 666681005453 Walker B; other site 666681005454 D-loop; other site 666681005455 H-loop/switch region; other site 666681005456 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 666681005457 active site 666681005458 catalytic triad [active] 666681005459 oxyanion hole [active] 666681005460 switch loop; other site 666681005461 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 666681005462 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 666681005463 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 666681005464 shikimate binding site; other site 666681005465 NAD(P) binding site [chemical binding]; other site 666681005466 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 666681005467 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 666681005468 Ligand Binding Site [chemical binding]; other site 666681005469 TilS substrate binding domain; Region: TilS; pfam09179 666681005470 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 666681005471 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 666681005472 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 666681005473 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 666681005474 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 666681005475 putative active site [active] 666681005476 putative PHP Thumb interface [polypeptide binding]; other site 666681005477 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 666681005478 generic binding surface II; other site 666681005479 generic binding surface I; other site 666681005480 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 666681005481 putative binding surface; other site 666681005482 active site 666681005483 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 666681005484 Hpt domain; Region: Hpt; pfam01627 666681005485 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 666681005486 putative binding surface; other site 666681005487 active site 666681005488 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 666681005489 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 666681005490 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 666681005491 ATP binding site [chemical binding]; other site 666681005492 Mg2+ binding site [ion binding]; other site 666681005493 G-X-G motif; other site 666681005494 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 666681005495 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 666681005496 Response regulator receiver domain; Region: Response_reg; pfam00072 666681005497 active site 666681005498 phosphorylation site [posttranslational modification] 666681005499 intermolecular recognition site; other site 666681005500 dimerization interface [polypeptide binding]; other site 666681005501 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 666681005502 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 666681005503 dimer interface [polypeptide binding]; other site 666681005504 putative CheW interface [polypeptide binding]; other site 666681005505 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; cd00588 666681005506 Response regulator receiver domain; Region: Response_reg; pfam00072 666681005507 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 666681005508 active site 666681005509 phosphorylation site [posttranslational modification] 666681005510 intermolecular recognition site; other site 666681005511 dimerization interface [polypeptide binding]; other site 666681005512 Response regulator receiver domain; Region: Response_reg; pfam00072 666681005513 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 666681005514 active site 666681005515 phosphorylation site [posttranslational modification] 666681005516 intermolecular recognition site; other site 666681005517 dimerization interface [polypeptide binding]; other site 666681005518 Uncharacterized conserved protein [Function unknown]; Region: COG3287 666681005519 FIST N domain; Region: FIST; pfam08495 666681005520 FIST C domain; Region: FIST_C; pfam10442 666681005521 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 666681005522 dimer interface [polypeptide binding]; other site 666681005523 catalytic triad [active] 666681005524 peroxidatic and resolving cysteines [active] 666681005525 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 666681005526 putative deacylase active site [active] 666681005527 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 666681005528 homodimer interface [polypeptide binding]; other site 666681005529 chemical substrate binding site [chemical binding]; other site 666681005530 oligomer interface [polypeptide binding]; other site 666681005531 metal binding site [ion binding]; metal-binding site 666681005532 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 666681005533 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 666681005534 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 666681005535 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 666681005536 S-adenosylmethionine binding site [chemical binding]; other site 666681005537 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 666681005538 RNB domain; Region: RNB; pfam00773 666681005539 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 666681005540 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 666681005541 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 666681005542 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 666681005543 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 666681005544 DNA-binding site [nucleotide binding]; DNA binding site 666681005545 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 666681005546 pyridoxal 5'-phosphate binding site [chemical binding]; other site 666681005547 homodimer interface [polypeptide binding]; other site 666681005548 catalytic residue [active] 666681005549 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 666681005550 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 666681005551 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 666681005552 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 666681005553 pyridoxal 5'-phosphate binding site [chemical binding]; other site 666681005554 homodimer interface [polypeptide binding]; other site 666681005555 catalytic residue [active] 666681005556 5-histidylcysteine sulfoxide synthase; Region: ovoA_Nterm; TIGR04344 666681005557 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 666681005558 Methyltransferase domain; Region: Methyltransf_31; pfam13847 666681005559 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 666681005560 S-adenosylmethionine binding site [chemical binding]; other site 666681005561 methionine sulfoxide reductase B; Provisional; Region: PRK00222 666681005562 SelR domain; Region: SelR; pfam01641 666681005563 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 666681005564 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 666681005565 putative active site [active] 666681005566 Zn binding site [ion binding]; other site 666681005567 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 666681005568 CoA binding domain; Region: CoA_binding_2; pfam13380 666681005569 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 666681005570 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 666681005571 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 666681005572 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 666681005573 Coenzyme A binding pocket [chemical binding]; other site 666681005574 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 666681005575 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 666681005576 ATP binding site [chemical binding]; other site 666681005577 putative Mg++ binding site [ion binding]; other site 666681005578 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 666681005579 nucleotide binding region [chemical binding]; other site 666681005580 ATP-binding site [chemical binding]; other site 666681005581 Helicase associated domain (HA2); Region: HA2; pfam04408 666681005582 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 666681005583 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 666681005584 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 666681005585 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 666681005586 metal binding triad; other site 666681005587 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 666681005588 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 666681005589 metal binding triad; other site 666681005590 acetyl-CoA synthetase; Provisional; Region: PRK00174 666681005591 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 666681005592 active site 666681005593 CoA binding site [chemical binding]; other site 666681005594 acyl-activating enzyme (AAE) consensus motif; other site 666681005595 AMP binding site [chemical binding]; other site 666681005596 acetate binding site [chemical binding]; other site 666681005597 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 666681005598 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 666681005599 Trp docking motif [polypeptide binding]; other site 666681005600 dimer interface [polypeptide binding]; other site 666681005601 active site 666681005602 small subunit binding site [polypeptide binding]; other site 666681005603 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 666681005604 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 666681005605 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 666681005606 putative active site [active] 666681005607 heme pocket [chemical binding]; other site 666681005608 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 666681005609 putative active site [active] 666681005610 heme pocket [chemical binding]; other site 666681005611 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 666681005612 dimer interface [polypeptide binding]; other site 666681005613 phosphorylation site [posttranslational modification] 666681005614 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 666681005615 ATP binding site [chemical binding]; other site 666681005616 Mg2+ binding site [ion binding]; other site 666681005617 G-X-G motif; other site 666681005618 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 666681005619 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 666681005620 active site 666681005621 phosphorylation site [posttranslational modification] 666681005622 intermolecular recognition site; other site 666681005623 dimerization interface [polypeptide binding]; other site 666681005624 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 666681005625 DNA binding residues [nucleotide binding] 666681005626 dimerization interface [polypeptide binding]; other site 666681005627 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 666681005628 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 666681005629 G1 box; other site 666681005630 putative GEF interaction site [polypeptide binding]; other site 666681005631 GTP/Mg2+ binding site [chemical binding]; other site 666681005632 Switch I region; other site 666681005633 G2 box; other site 666681005634 G3 box; other site 666681005635 Switch II region; other site 666681005636 G4 box; other site 666681005637 G5 box; other site 666681005638 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 666681005639 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 666681005640 SEC-C motif; Region: SEC-C; pfam02810 666681005641 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 666681005642 dimerization interface [polypeptide binding]; other site 666681005643 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 666681005644 dimer interface [polypeptide binding]; other site 666681005645 phosphorylation site [posttranslational modification] 666681005646 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 666681005647 ATP binding site [chemical binding]; other site 666681005648 Mg2+ binding site [ion binding]; other site 666681005649 G-X-G motif; other site 666681005650 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 666681005651 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 666681005652 active site 666681005653 phosphorylation site [posttranslational modification] 666681005654 intermolecular recognition site; other site 666681005655 dimerization interface [polypeptide binding]; other site 666681005656 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 666681005657 DNA binding site [nucleotide binding] 666681005658 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 666681005659 dimer interface [polypeptide binding]; other site 666681005660 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 666681005661 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 666681005662 Walker A/P-loop; other site 666681005663 ATP binding site [chemical binding]; other site 666681005664 Q-loop/lid; other site 666681005665 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 666681005666 ABC transporter; Region: ABC_tran_2; pfam12848 666681005667 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 666681005668 TIGR02099 family protein; Region: TIGR02099 666681005669 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 666681005670 nitrilase; Region: PLN02798 666681005671 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 666681005672 putative active site [active] 666681005673 catalytic triad [active] 666681005674 dimer interface [polypeptide binding]; other site 666681005675 protease TldD; Provisional; Region: tldD; PRK10735 666681005676 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 666681005677 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 666681005678 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 666681005679 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 666681005680 ATP binding site [chemical binding]; other site 666681005681 putative Mg++ binding site [ion binding]; other site 666681005682 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 666681005683 nucleotide binding region [chemical binding]; other site 666681005684 ATP-binding site [chemical binding]; other site 666681005685 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 666681005686 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 666681005687 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 666681005688 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 666681005689 Part of AAA domain; Region: AAA_19; pfam13245 666681005690 Family description; Region: UvrD_C_2; pfam13538 666681005691 probable DNA repair protein; Region: TIGR03623 666681005692 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 666681005693 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 666681005694 PAS domain; Region: PAS_9; pfam13426 666681005695 putative active site [active] 666681005696 heme pocket [chemical binding]; other site 666681005697 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 666681005698 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 666681005699 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 666681005700 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 666681005701 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 666681005702 dimer interface [polypeptide binding]; other site 666681005703 putative CheW interface [polypeptide binding]; other site 666681005704 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 666681005705 dimer interface [polypeptide binding]; other site 666681005706 putative CheW interface [polypeptide binding]; other site 666681005707 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 666681005708 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 666681005709 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 666681005710 dimer interface [polypeptide binding]; other site 666681005711 putative CheW interface [polypeptide binding]; other site 666681005712 PAS domain S-box; Region: sensory_box; TIGR00229 666681005713 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 666681005714 putative active site [active] 666681005715 heme pocket [chemical binding]; other site 666681005716 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 666681005717 Tar ligand binding domain homologue; Region: TarH; pfam02203 666681005718 HAMP domain; Region: HAMP; pfam00672 666681005719 dimerization interface [polypeptide binding]; other site 666681005720 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 666681005721 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 666681005722 putative active site [active] 666681005723 heme pocket [chemical binding]; other site 666681005724 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 666681005725 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 666681005726 putative active site [active] 666681005727 heme pocket [chemical binding]; other site 666681005728 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 666681005729 putative active site [active] 666681005730 heme pocket [chemical binding]; other site 666681005731 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 666681005732 dimer interface [polypeptide binding]; other site 666681005733 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 666681005734 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 666681005735 dimer interface [polypeptide binding]; other site 666681005736 putative CheW interface [polypeptide binding]; other site 666681005737 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 666681005738 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 666681005739 putative binding surface; other site 666681005740 active site 666681005741 CheY binding; Region: CheY-binding; pfam09078 666681005742 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 666681005743 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 666681005744 ATP binding site [chemical binding]; other site 666681005745 Mg2+ binding site [ion binding]; other site 666681005746 G-X-G motif; other site 666681005747 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 666681005748 Response regulator receiver domain; Region: Response_reg; pfam00072 666681005749 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 666681005750 active site 666681005751 phosphorylation site [posttranslational modification] 666681005752 intermolecular recognition site; other site 666681005753 dimerization interface [polypeptide binding]; other site 666681005754 flagellar motor protein MotB; Validated; Region: motB; PRK09041 666681005755 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 666681005756 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 666681005757 ligand binding site [chemical binding]; other site 666681005758 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 666681005759 flagellar motor protein MotA; Validated; Region: PRK09110 666681005760 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 666681005761 S-adenosylmethionine binding site [chemical binding]; other site 666681005762 transcriptional activator FlhC; Provisional; Region: PRK12722 666681005763 transcriptional activator FlhD; Provisional; Region: PRK02909 666681005764 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 666681005765 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 666681005766 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 666681005767 FHIPEP family; Region: FHIPEP; pfam00771 666681005768 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 666681005769 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 666681005770 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 666681005771 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 666681005772 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 666681005773 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 666681005774 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 666681005775 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 666681005776 DNA binding residues [nucleotide binding] 666681005777 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 666681005778 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 666681005779 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 666681005780 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 666681005781 ligand binding site [chemical binding]; other site 666681005782 Cache domain; Region: Cache_1; pfam02743 666681005783 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 666681005784 PAS fold; Region: PAS_4; pfam08448 666681005785 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 666681005786 PAS fold; Region: PAS_3; pfam08447 666681005787 putative active site [active] 666681005788 heme pocket [chemical binding]; other site 666681005789 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 666681005790 putative active site [active] 666681005791 PAS fold; Region: PAS_3; pfam08447 666681005792 heme pocket [chemical binding]; other site 666681005793 PAS domain; Region: PAS_9; pfam13426 666681005794 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 666681005795 putative active site [active] 666681005796 heme pocket [chemical binding]; other site 666681005797 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 666681005798 PAS fold; Region: PAS_3; pfam08447 666681005799 putative active site [active] 666681005800 heme pocket [chemical binding]; other site 666681005801 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 666681005802 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 666681005803 putative active site [active] 666681005804 heme pocket [chemical binding]; other site 666681005805 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 666681005806 GAF domain; Region: GAF; pfam01590 666681005807 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 666681005808 PAS domain; Region: PAS_9; pfam13426 666681005809 putative active site [active] 666681005810 heme pocket [chemical binding]; other site 666681005811 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681005812 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681005813 metal binding site [ion binding]; metal-binding site 666681005814 active site 666681005815 I-site; other site 666681005816 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 666681005817 FlgN protein; Region: FlgN; pfam05130 666681005818 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 666681005819 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 666681005820 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 666681005821 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 666681005822 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 666681005823 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 666681005824 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 666681005825 Domain of unknown function (DUF1693); Region: DUF1693; pfam07984 666681005826 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 666681005827 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 666681005828 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 666681005829 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 666681005830 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 666681005831 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 666681005832 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 666681005833 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 666681005834 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 666681005835 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 666681005836 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 666681005837 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 666681005838 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 666681005839 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 666681005840 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 666681005841 Flagellar L-ring protein; Region: FlgH; pfam02107 666681005842 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 666681005843 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 666681005844 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 666681005845 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 666681005846 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 666681005847 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 666681005848 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 666681005849 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 666681005850 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 666681005851 Domain of unknown function (DUF336); Region: DUF336; cl01249 666681005852 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 666681005853 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 666681005854 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 666681005855 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 666681005856 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 666681005857 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 666681005858 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 666681005859 Walker A motif; other site 666681005860 ATP binding site [chemical binding]; other site 666681005861 Walker B motif; other site 666681005862 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 666681005863 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 666681005864 Secretin and TonB N terminus short domain; Region: STN; smart00965 666681005865 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 666681005866 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 666681005867 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 666681005868 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 666681005869 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 666681005870 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 666681005871 AsmA family; Region: AsmA; pfam05170 666681005872 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 666681005873 Protein of unknown function (DUF330); Region: DUF330; cl01135 666681005874 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 666681005875 mce related protein; Region: MCE; pfam02470 666681005876 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 666681005877 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 666681005878 Walker A/P-loop; other site 666681005879 ATP binding site [chemical binding]; other site 666681005880 Q-loop/lid; other site 666681005881 ABC transporter signature motif; other site 666681005882 Walker B; other site 666681005883 D-loop; other site 666681005884 H-loop/switch region; other site 666681005885 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 666681005886 Permease; Region: Permease; pfam02405 666681005887 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 666681005888 PgaD-like protein; Region: PgaD; cl14676 666681005889 N-glycosyltransferase; Provisional; Region: PRK11204 666681005890 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 666681005891 DXD motif; other site 666681005892 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 666681005893 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 666681005894 putative active site [active] 666681005895 putative metal binding site [ion binding]; other site 666681005896 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 666681005897 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 666681005898 TPR motif; other site 666681005899 binding surface 666681005900 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 666681005901 TPR motif; other site 666681005902 binding surface 666681005903 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 666681005904 Domain of unknown function DUF20; Region: UPF0118; pfam01594 666681005905 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681005906 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681005907 metal binding site [ion binding]; metal-binding site 666681005908 active site 666681005909 I-site; other site 666681005910 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 666681005911 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 666681005912 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 666681005913 DNA binding residues [nucleotide binding] 666681005914 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 666681005915 IHF dimer interface [polypeptide binding]; other site 666681005916 IHF - DNA interface [nucleotide binding]; other site 666681005917 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 666681005918 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 666681005919 putative tRNA-binding site [nucleotide binding]; other site 666681005920 B3/4 domain; Region: B3_4; pfam03483 666681005921 tRNA synthetase B5 domain; Region: B5; smart00874 666681005922 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 666681005923 dimer interface [polypeptide binding]; other site 666681005924 motif 1; other site 666681005925 motif 3; other site 666681005926 motif 2; other site 666681005927 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 666681005928 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 666681005929 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 666681005930 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 666681005931 dimer interface [polypeptide binding]; other site 666681005932 motif 1; other site 666681005933 active site 666681005934 motif 2; other site 666681005935 motif 3; other site 666681005936 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 666681005937 23S rRNA binding site [nucleotide binding]; other site 666681005938 L21 binding site [polypeptide binding]; other site 666681005939 L13 binding site [polypeptide binding]; other site 666681005940 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 666681005941 translation initiation factor IF-3; Region: infC; TIGR00168 666681005942 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 666681005943 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 666681005944 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 666681005945 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 666681005946 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 666681005947 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 666681005948 active site 666681005949 dimer interface [polypeptide binding]; other site 666681005950 motif 1; other site 666681005951 motif 2; other site 666681005952 motif 3; other site 666681005953 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 666681005954 anticodon binding site; other site 666681005955 Transglycosylase SLT domain; Region: SLT_2; pfam13406 666681005956 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 666681005957 N-acetyl-D-glucosamine binding site [chemical binding]; other site 666681005958 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 666681005959 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 666681005960 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 666681005961 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 666681005962 putative NAD(P) binding site [chemical binding]; other site 666681005963 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 666681005964 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 666681005965 dimer interface [polypeptide binding]; other site 666681005966 ADP-ribose binding site [chemical binding]; other site 666681005967 active site 666681005968 nudix motif; other site 666681005969 metal binding site [ion binding]; metal-binding site 666681005970 Predicted metalloprotease [General function prediction only]; Region: COG2321 666681005971 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 666681005972 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 666681005973 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 666681005974 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 666681005975 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 666681005976 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 666681005977 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 666681005978 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 666681005979 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 666681005980 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 666681005981 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 666681005982 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 666681005983 4Fe-4S binding domain; Region: Fer4; pfam00037 666681005984 4Fe-4S binding domain; Region: Fer4; pfam00037 666681005985 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 666681005986 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 666681005987 NADH dehydrogenase subunit G; Validated; Region: PRK09129 666681005988 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 666681005989 catalytic loop [active] 666681005990 iron binding site [ion binding]; other site 666681005991 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 666681005992 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 666681005993 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; cd02775 666681005994 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 666681005995 SLBB domain; Region: SLBB; pfam10531 666681005996 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 666681005997 NADH dehydrogenase subunit E; Validated; Region: PRK07539 666681005998 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 666681005999 putative dimer interface [polypeptide binding]; other site 666681006000 [2Fe-2S] cluster binding site [ion binding]; other site 666681006001 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 666681006002 NADH dehydrogenase subunit D; Validated; Region: PRK06075 666681006003 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 666681006004 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 666681006005 NADH dehydrogenase subunit B; Validated; Region: PRK06411 666681006006 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 666681006007 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 666681006008 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 666681006009 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 666681006010 HlyD family secretion protein; Region: HlyD_3; pfam13437 666681006011 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 666681006012 Protein export membrane protein; Region: SecD_SecF; cl14618 666681006013 ribosome-associated GTPase EngA; Region: GTPase_EngA; TIGR03594 666681006014 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 666681006015 Transposase; Region: DEDD_Tnp_IS110; pfam01548 666681006016 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 666681006017 Protein of unknown function, DUF482; Region: DUF482; pfam04339 666681006018 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 666681006019 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 666681006020 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 666681006021 catalytic residue [active] 666681006022 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 666681006023 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 666681006024 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 666681006025 dimer interface [polypeptide binding]; other site 666681006026 active site 666681006027 acyl carrier protein; Provisional; Region: acpP; PRK00982 666681006028 Esterase/lipase [General function prediction only]; Region: COG1647 666681006029 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 666681006030 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 666681006031 inhibitor-cofactor binding pocket; inhibition site 666681006032 pyridoxal 5'-phosphate binding site [chemical binding]; other site 666681006033 catalytic residue [active] 666681006034 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 666681006035 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 666681006036 active site 666681006037 DNA binding site [nucleotide binding] 666681006038 catalytic site [active] 666681006039 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 666681006040 putative active site [active] 666681006041 putative NTP binding site [chemical binding]; other site 666681006042 putative nucleic acid binding site [nucleotide binding]; other site 666681006043 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 666681006044 DEAD-like helicases superfamily; Region: DEXDc; smart00487 666681006045 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 666681006046 ATP binding site [chemical binding]; other site 666681006047 putative Mg++ binding site [ion binding]; other site 666681006048 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 666681006049 nucleotide binding region [chemical binding]; other site 666681006050 ATP-binding site [chemical binding]; other site 666681006051 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 666681006052 Fic family protein [Function unknown]; Region: COG3177 666681006053 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 666681006054 Fic/DOC family; Region: Fic; pfam02661 666681006055 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 666681006056 putative DNA binding site [nucleotide binding]; other site 666681006057 Protein of unknown function DUF262; Region: DUF262; pfam03235 666681006058 Uncharacterized conserved protein [Function unknown]; Region: COG1479 666681006059 Uncharacterized conserved protein [Function unknown]; Region: COG3472 666681006060 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 666681006061 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 666681006062 HsdM N-terminal domain; Region: HsdM_N; pfam12161 666681006063 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 666681006064 Methyltransferase domain; Region: Methyltransf_26; pfam13659 666681006065 Antirestriction protein (ArdA); Region: ArdA; cl01953 666681006066 Replication-relaxation; Region: Replic_Relax; pfam13814 666681006067 AAA domain; Region: AAA_25; pfam13481 666681006068 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 666681006069 ATP binding site [chemical binding]; other site 666681006070 Walker A motif; other site 666681006071 Walker B motif; other site 666681006072 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 666681006073 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 666681006074 active site 666681006075 metal binding site [ion binding]; metal-binding site 666681006076 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 666681006077 integrase; Provisional; Region: PRK09692 666681006078 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 666681006079 active site 666681006080 Int/Topo IB signature motif; other site 666681006081 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 666681006082 triosephosphate isomerase; Provisional; Region: PRK14567 666681006083 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 666681006084 substrate binding site [chemical binding]; other site 666681006085 dimer interface [polypeptide binding]; other site 666681006086 catalytic triad [active] 666681006087 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 666681006088 putative substrate binding site [chemical binding]; other site 666681006089 putative ATP binding site [chemical binding]; other site 666681006090 Hemerythrin; Region: Hemerythrin; cd12107 666681006091 Fe binding site [ion binding]; other site 666681006092 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 666681006093 DHHA1 domain; Region: DHHA1; pfam02272 666681006094 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 666681006095 DHH family; Region: DHH; pfam01368 666681006096 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 666681006097 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 666681006098 putative C-terminal domain interface [polypeptide binding]; other site 666681006099 putative GSH binding site (G-site) [chemical binding]; other site 666681006100 putative dimer interface [polypeptide binding]; other site 666681006101 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 666681006102 N-terminal domain interface [polypeptide binding]; other site 666681006103 dimer interface [polypeptide binding]; other site 666681006104 substrate binding pocket (H-site) [chemical binding]; other site 666681006105 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 666681006106 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 666681006107 MarR family; Region: MarR_2; cl17246 666681006108 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 666681006109 Transcriptional regulators [Transcription]; Region: MarR; COG1846 666681006110 MarR family; Region: MarR; pfam01047 666681006111 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 666681006112 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 666681006113 putative ion selectivity filter; other site 666681006114 putative pore gating glutamate residue; other site 666681006115 putative H+/Cl- coupling transport residue; other site 666681006116 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 666681006117 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 666681006118 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 666681006119 ligand binding site [chemical binding]; other site 666681006120 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 666681006121 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 666681006122 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 666681006123 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 666681006124 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 666681006125 DNA binding residues [nucleotide binding] 666681006126 putative dimer interface [polypeptide binding]; other site 666681006127 putative metal binding residues [ion binding]; other site 666681006128 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 666681006129 Transposase; Region: DEDD_Tnp_IS110; pfam01548 666681006130 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 666681006131 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 666681006132 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 666681006133 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 666681006134 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 666681006135 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 666681006136 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 666681006137 sensor protein QseC; Provisional; Region: PRK10337 666681006138 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 666681006139 dimer interface [polypeptide binding]; other site 666681006140 phosphorylation site [posttranslational modification] 666681006141 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 666681006142 ATP binding site [chemical binding]; other site 666681006143 Mg2+ binding site [ion binding]; other site 666681006144 G-X-G motif; other site 666681006145 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 666681006146 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 666681006147 active site 666681006148 phosphorylation site [posttranslational modification] 666681006149 intermolecular recognition site; other site 666681006150 dimerization interface [polypeptide binding]; other site 666681006151 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 666681006152 DNA binding site [nucleotide binding] 666681006153 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 666681006154 Uncharacterized conserved protein [Function unknown]; Region: COG3391 666681006155 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 666681006156 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 666681006157 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 666681006158 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 666681006159 PLD-like domain; Region: PLDc_2; pfam13091 666681006160 putative active site [active] 666681006161 catalytic site [active] 666681006162 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 666681006163 PLD-like domain; Region: PLDc_2; pfam13091 666681006164 putative active site [active] 666681006165 catalytic site [active] 666681006166 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 666681006167 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 666681006168 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 666681006169 putative dimerization interface [polypeptide binding]; other site 666681006170 Predicted membrane protein [Function unknown]; Region: COG2855 666681006171 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 666681006172 sulfite oxidase; Provisional; Region: PLN00177 666681006173 Moco binding site; other site 666681006174 metal coordination site [ion binding]; other site 666681006175 Cytochrome c; Region: Cytochrom_C; cl11414 666681006176 Domain of unknown function (DUF202); Region: DUF202; cl09954 666681006177 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 666681006178 integron integrase; Region: integrase_gron; TIGR02249 666681006179 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 666681006180 Int/Topo IB signature motif; other site 666681006181 Protein of unknown function DUF262; Region: DUF262; pfam03235 666681006182 Uncharacterized conserved protein [Function unknown]; Region: COG1479 666681006183 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 666681006184 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 666681006185 DNA binding site [nucleotide binding] 666681006186 Int/Topo IB signature motif; other site 666681006187 active site 666681006188 catalytic residues [active] 666681006189 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 666681006190 active site 666681006191 catalytic residues [active] 666681006192 DNA binding site [nucleotide binding] 666681006193 Int/Topo IB signature motif; other site 666681006194 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 666681006195 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 666681006196 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 666681006197 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 666681006198 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 666681006199 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 666681006200 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 666681006201 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 666681006202 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 666681006203 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 666681006204 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 666681006205 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 666681006206 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 666681006207 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 666681006208 putative PBP binding loops; other site 666681006209 ABC-ATPase subunit interface; other site 666681006210 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 666681006211 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 666681006212 Walker A/P-loop; other site 666681006213 ATP binding site [chemical binding]; other site 666681006214 Q-loop/lid; other site 666681006215 ABC transporter signature motif; other site 666681006216 Walker B; other site 666681006217 D-loop; other site 666681006218 H-loop/switch region; other site 666681006219 DNA polymerase IV; Reviewed; Region: PRK03103 666681006220 Y-family of DNA polymerases; Region: PolY; cd00424 666681006221 active site 666681006222 DNA binding site [nucleotide binding] 666681006223 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 666681006224 SdiA-regulated; Region: SdiA-regulated; cd09971 666681006225 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3204 666681006226 putative active site [active] 666681006227 Lamin Tail Domain; Region: LTD; pfam00932 666681006228 PEP-CTERM motif; Region: VPEP; pfam07589 666681006229 methionine sulfoxide reductase A; Provisional; Region: PRK14054 666681006230 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 666681006231 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 666681006232 oligomer interface [polypeptide binding]; other site 666681006233 metal binding site [ion binding]; metal-binding site 666681006234 metal binding site [ion binding]; metal-binding site 666681006235 Cl binding site [ion binding]; other site 666681006236 aspartate ring; other site 666681006237 basic sphincter; other site 666681006238 putative hydrophobic gate; other site 666681006239 periplasmic entrance; other site 666681006240 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 666681006241 dimer interface [polypeptide binding]; other site 666681006242 Kua-ubiquitin conjugating enzyme hybrid localisation domain; Region: Kua-UEV1_localn; pfam10520 666681006243 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 666681006244 sequence-specific DNA binding site [nucleotide binding]; other site 666681006245 salt bridge; other site 666681006246 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 666681006247 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 666681006248 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 666681006249 active site 666681006250 HIGH motif; other site 666681006251 nucleotide binding site [chemical binding]; other site 666681006252 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 666681006253 active site 666681006254 KMSKS motif; other site 666681006255 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 666681006256 Biotin operon repressor [Transcription]; Region: BirA; COG1654 666681006257 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 666681006258 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 666681006259 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 666681006260 Type III pantothenate kinase; Region: Pan_kinase; cl17198 666681006261 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 666681006262 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 666681006263 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 666681006264 S-adenosylmethionine binding site [chemical binding]; other site 666681006265 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 666681006266 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 666681006267 Peptidase family M23; Region: Peptidase_M23; pfam01551 666681006268 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 666681006269 catalytic residues [active] 666681006270 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 666681006271 putative FMN binding site [chemical binding]; other site 666681006272 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 666681006273 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 666681006274 FMN binding site [chemical binding]; other site 666681006275 active site 666681006276 substrate binding site [chemical binding]; other site 666681006277 catalytic residue [active] 666681006278 YceI-like domain; Region: YceI; cl01001 666681006279 Pirin-related protein [General function prediction only]; Region: COG1741 666681006280 Pirin; Region: Pirin; pfam02678 666681006281 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 666681006282 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 666681006283 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 666681006284 dimerization interface [polypeptide binding]; other site 666681006285 MCM2/3/5 family; Region: MCM; pfam00493 666681006286 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 666681006287 Walker A motif; other site 666681006288 ATP binding site [chemical binding]; other site 666681006289 Walker B motif; other site 666681006290 arginine finger; other site 666681006291 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 666681006292 Protein of unknown function DUF58; Region: DUF58; pfam01882 666681006293 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 666681006294 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 666681006295 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 666681006296 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 666681006297 nucleoside/Zn binding site; other site 666681006298 dimer interface [polypeptide binding]; other site 666681006299 catalytic motif [active] 666681006300 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 666681006301 YccA-like proteins; Region: YccA_like; cd10433 666681006302 beta-hexosaminidase; Provisional; Region: PRK05337 666681006303 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 666681006304 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 666681006305 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 666681006306 dimer interface [polypeptide binding]; other site 666681006307 conserved gate region; other site 666681006308 putative PBP binding loops; other site 666681006309 ABC-ATPase subunit interface; other site 666681006310 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 666681006311 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 666681006312 dimer interface [polypeptide binding]; other site 666681006313 conserved gate region; other site 666681006314 putative PBP binding loops; other site 666681006315 ABC-ATPase subunit interface; other site 666681006316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 666681006317 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 666681006318 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 666681006319 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 666681006320 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 666681006321 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 666681006322 TPR motif; other site 666681006323 binding surface 666681006324 short chain dehydrogenase; Provisional; Region: PRK09072 666681006325 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 666681006326 NAD(P) binding site [chemical binding]; other site 666681006327 active site 666681006328 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 666681006329 heme binding pocket [chemical binding]; other site 666681006330 heme ligand [chemical binding]; other site 666681006331 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 666681006332 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_3; cd05914 666681006333 acyl-activating enzyme (AAE) consensus motif; other site 666681006334 putative AMP binding site [chemical binding]; other site 666681006335 putative active site [active] 666681006336 putative CoA binding site [chemical binding]; other site 666681006337 Thermostable hemolysin; Region: T_hemolysin; pfam12261 666681006338 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 666681006339 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 666681006340 dimer interface [polypeptide binding]; other site 666681006341 phosphorylation site [posttranslational modification] 666681006342 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 666681006343 ATP binding site [chemical binding]; other site 666681006344 G-X-G motif; other site 666681006345 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 666681006346 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 666681006347 active site 666681006348 phosphorylation site [posttranslational modification] 666681006349 intermolecular recognition site; other site 666681006350 dimerization interface [polypeptide binding]; other site 666681006351 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 666681006352 Walker A motif; other site 666681006353 ATP binding site [chemical binding]; other site 666681006354 Walker B motif; other site 666681006355 arginine finger; other site 666681006356 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 666681006357 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 666681006358 Low-spin heme binding site [chemical binding]; other site 666681006359 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 666681006360 Putative water exit pathway; other site 666681006361 Binuclear center (active site) [active] 666681006362 Putative proton exit pathway; other site 666681006363 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 666681006364 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 666681006365 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 666681006366 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 666681006367 Cytochrome c; Region: Cytochrom_C; pfam00034 666681006368 Cytochrome c; Region: Cytochrom_C; pfam00034 666681006369 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 666681006370 4Fe-4S binding domain; Region: Fer4_5; pfam12801 666681006371 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 666681006372 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 666681006373 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 666681006374 FixH; Region: FixH; pfam05751 666681006375 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 666681006376 hypothetical protein; Provisional; Region: PRK09126 666681006377 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 666681006378 Radical SAM superfamily; Region: Radical_SAM; pfam04055 666681006379 FeS/SAM binding site; other site 666681006380 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 666681006381 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 666681006382 ligand binding site [chemical binding]; other site 666681006383 flexible hinge region; other site 666681006384 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; cd00092 666681006385 putative switch regulator; other site 666681006386 non-specific DNA interactions [nucleotide binding]; other site 666681006387 DNA binding site [nucleotide binding] 666681006388 sequence specific DNA binding site [nucleotide binding]; other site 666681006389 putative cAMP binding site [chemical binding]; other site 666681006390 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 666681006391 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 666681006392 FeS/SAM binding site; other site 666681006393 HemN C-terminal domain; Region: HemN_C; pfam06969 666681006394 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 666681006395 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 666681006396 TRAM domain; Region: TRAM; cl01282 666681006397 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 666681006398 S-adenosylmethionine binding site [chemical binding]; other site 666681006399 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 666681006400 active site 666681006401 catalytic site [active] 666681006402 substrate binding site [chemical binding]; other site 666681006403 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 666681006404 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 666681006405 cysteine synthase B; Region: cysM; TIGR01138 666681006406 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 666681006407 dimer interface [polypeptide binding]; other site 666681006408 pyridoxal 5'-phosphate binding site [chemical binding]; other site 666681006409 catalytic residue [active] 666681006410 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 666681006411 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 666681006412 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 666681006413 generic binding surface II; other site 666681006414 generic binding surface I; other site 666681006415 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 666681006416 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 666681006417 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 666681006418 catalytic core [active] 666681006419 polyphosphate kinase; Provisional; Region: PRK05443 666681006420 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 666681006421 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 666681006422 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 666681006423 putative active site [active] 666681006424 catalytic site [active] 666681006425 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 666681006426 putative domain interface [polypeptide binding]; other site 666681006427 putative active site [active] 666681006428 catalytic site [active] 666681006429 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 666681006430 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 666681006431 putative ATP binding site [chemical binding]; other site 666681006432 putative substrate interface [chemical binding]; other site 666681006433 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 666681006434 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 666681006435 active site 666681006436 hydrophilic channel; other site 666681006437 dimerization interface [polypeptide binding]; other site 666681006438 catalytic residues [active] 666681006439 active site lid [active] 666681006440 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 666681006441 Recombination protein O N terminal; Region: RecO_N; pfam11967 666681006442 Recombination protein O C terminal; Region: RecO_C; pfam02565 666681006443 GTPase Era; Reviewed; Region: era; PRK00089 666681006444 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 666681006445 G1 box; other site 666681006446 GTP/Mg2+ binding site [chemical binding]; other site 666681006447 Switch I region; other site 666681006448 G2 box; other site 666681006449 Switch II region; other site 666681006450 G3 box; other site 666681006451 G4 box; other site 666681006452 G5 box; other site 666681006453 KH domain; Region: KH_2; pfam07650 666681006454 ribonuclease III; Reviewed; Region: rnc; PRK00102 666681006455 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 666681006456 dimerization interface [polypeptide binding]; other site 666681006457 active site 666681006458 metal binding site [ion binding]; metal-binding site 666681006459 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 666681006460 dsRNA binding site [nucleotide binding]; other site 666681006461 signal peptidase I; Provisional; Region: PRK10861 666681006462 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 666681006463 Catalytic site [active] 666681006464 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 666681006465 GTP-binding protein LepA; Provisional; Region: PRK05433 666681006466 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 666681006467 G1 box; other site 666681006468 putative GEF interaction site [polypeptide binding]; other site 666681006469 GTP/Mg2+ binding site [chemical binding]; other site 666681006470 Switch I region; other site 666681006471 G2 box; other site 666681006472 G3 box; other site 666681006473 Switch II region; other site 666681006474 G4 box; other site 666681006475 G5 box; other site 666681006476 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 666681006477 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 666681006478 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 666681006479 MORN repeat; Region: MORN; cl14787 666681006480 MORN repeat; Region: MORN; cl14787 666681006481 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 666681006482 putative catalytic site [active] 666681006483 putative metal binding site [ion binding]; other site 666681006484 putative phosphate binding site [ion binding]; other site 666681006485 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 666681006486 PLD-like domain; Region: PLDc_2; pfam13091 666681006487 putative active site [active] 666681006488 catalytic site [active] 666681006489 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 666681006490 PLD-like domain; Region: PLDc_2; pfam13091 666681006491 putative active site [active] 666681006492 catalytic site [active] 666681006493 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 666681006494 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 666681006495 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 666681006496 protein binding site [polypeptide binding]; other site 666681006497 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 666681006498 protein binding site [polypeptide binding]; other site 666681006499 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 666681006500 anti-sigma E factor; Provisional; Region: rseB; PRK09455 666681006501 MucB/RseB family; Region: MucB_RseB; pfam03888 666681006502 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 666681006503 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 666681006504 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 666681006505 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 666681006506 DNA binding residues [nucleotide binding] 666681006507 L-aspartate oxidase; Provisional; Region: PRK09077 666681006508 L-aspartate oxidase; Provisional; Region: PRK06175 666681006509 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 666681006510 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 666681006511 Staphylococcal nuclease homologue; Region: SNase; pfam00565 666681006512 Catalytic site; other site 666681006513 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 666681006514 DEAD-like helicases superfamily; Region: DEXDc; smart00487 666681006515 ATP binding site [chemical binding]; other site 666681006516 Mg++ binding site [ion binding]; other site 666681006517 motif III; other site 666681006518 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 666681006519 nucleotide binding region [chemical binding]; other site 666681006520 ATP-binding site [chemical binding]; other site 666681006521 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 666681006522 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 666681006523 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 666681006524 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 666681006525 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 666681006526 MutS domain I; Region: MutS_I; pfam01624 666681006527 MutS domain II; Region: MutS_II; pfam05188 666681006528 MutS domain III; Region: MutS_III; pfam05192 666681006529 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 666681006530 Walker A/P-loop; other site 666681006531 ATP binding site [chemical binding]; other site 666681006532 Q-loop/lid; other site 666681006533 ABC transporter signature motif; other site 666681006534 Walker B; other site 666681006535 D-loop; other site 666681006536 H-loop/switch region; other site 666681006537 Site-specific recombinase; Region: SpecificRecomb; pfam10136 666681006538 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 666681006539 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 666681006540 active site 666681006541 dimerization interface [polypeptide binding]; other site 666681006542 Rhomboid family; Region: Rhomboid; pfam01694 666681006543 TIGR03790 family protein; Region: TIGR03790 666681006544 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 666681006545 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 666681006546 serine O-acetyltransferase; Region: cysE; TIGR01172 666681006547 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 666681006548 trimer interface [polypeptide binding]; other site 666681006549 active site 666681006550 substrate binding site [chemical binding]; other site 666681006551 CoA binding site [chemical binding]; other site 666681006552 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 666681006553 Rrf2 family protein; Region: rrf2_super; TIGR00738 666681006554 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 666681006555 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 666681006556 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 666681006557 catalytic residue [active] 666681006558 cysteine desulfurase; Provisional; Region: PRK14012 666681006559 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 666681006560 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 666681006561 catalytic residue [active] 666681006562 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 666681006563 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 666681006564 trimerization site [polypeptide binding]; other site 666681006565 active site 666681006566 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 666681006567 co-chaperone HscB; Provisional; Region: hscB; PRK03578 666681006568 DnaJ domain; Region: DnaJ; pfam00226 666681006569 HSP70 interaction site [polypeptide binding]; other site 666681006570 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 666681006571 chaperone protein HscA; Provisional; Region: hscA; PRK05183 666681006572 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 666681006573 nucleotide binding site [chemical binding]; other site 666681006574 putative NEF/HSP70 interaction site [polypeptide binding]; other site 666681006575 SBD interface [polypeptide binding]; other site 666681006576 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 666681006577 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 666681006578 catalytic loop [active] 666681006579 iron binding site [ion binding]; other site 666681006580 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 666681006581 active site clefts [active] 666681006582 zinc binding site [ion binding]; other site 666681006583 dimer interface [polypeptide binding]; other site 666681006584 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 666681006585 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 666681006586 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 666681006587 dimer interface [polypeptide binding]; other site 666681006588 putative anticodon binding site; other site 666681006589 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 666681006590 motif 1; other site 666681006591 active site 666681006592 motif 2; other site 666681006593 motif 3; other site 666681006594 peptide chain release factor 2; Validated; Region: prfB; PRK00578 666681006595 This domain is found in peptide chain release factors; Region: PCRF; smart00937 666681006596 RF-1 domain; Region: RF-1; pfam00472 666681006597 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 666681006598 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 666681006599 ArsC family; Region: ArsC; pfam03960 666681006600 catalytic residues [active] 666681006601 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 666681006602 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 666681006603 PBP superfamily domain; Region: PBP_like_2; cl17296 666681006604 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 666681006605 dimer interface [polypeptide binding]; other site 666681006606 conserved gate region; other site 666681006607 putative PBP binding loops; other site 666681006608 ABC-ATPase subunit interface; other site 666681006609 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 666681006610 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 666681006611 dimer interface [polypeptide binding]; other site 666681006612 conserved gate region; other site 666681006613 putative PBP binding loops; other site 666681006614 ABC-ATPase subunit interface; other site 666681006615 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 666681006616 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 666681006617 Walker A/P-loop; other site 666681006618 ATP binding site [chemical binding]; other site 666681006619 Q-loop/lid; other site 666681006620 ABC transporter signature motif; other site 666681006621 Walker B; other site 666681006622 D-loop; other site 666681006623 H-loop/switch region; other site 666681006624 transcriptional regulator PhoU; Provisional; Region: PRK11115 666681006625 PhoU domain; Region: PhoU; pfam01895 666681006626 PhoU domain; Region: PhoU; pfam01895 666681006627 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 666681006628 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 666681006629 active site 666681006630 substrate binding site [chemical binding]; other site 666681006631 metal binding site [ion binding]; metal-binding site 666681006632 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 666681006633 dihydropteroate synthase; Region: DHPS; TIGR01496 666681006634 substrate binding pocket [chemical binding]; other site 666681006635 dimer interface [polypeptide binding]; other site 666681006636 inhibitor binding site; inhibition site 666681006637 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 666681006638 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 666681006639 Walker A motif; other site 666681006640 ATP binding site [chemical binding]; other site 666681006641 Walker B motif; other site 666681006642 arginine finger; other site 666681006643 Peptidase family M41; Region: Peptidase_M41; pfam01434 666681006644 FtsJ-like methyltransferase; Region: FtsJ; cl17430 666681006645 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 666681006646 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 666681006647 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 666681006648 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 666681006649 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 666681006650 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 666681006651 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 666681006652 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 666681006653 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 666681006654 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 666681006655 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 666681006656 ATP-grasp domain; Region: ATP-grasp_4; cl17255 666681006657 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 666681006658 IMP binding site; other site 666681006659 dimer interface [polypeptide binding]; other site 666681006660 interdomain contacts; other site 666681006661 partial ornithine binding site; other site 666681006662 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 666681006663 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 666681006664 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 666681006665 catalytic site [active] 666681006666 subunit interface [polypeptide binding]; other site 666681006667 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 666681006668 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 666681006669 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 666681006670 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681006671 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681006672 metal binding site [ion binding]; metal-binding site 666681006673 active site 666681006674 I-site; other site 666681006675 dihydrodipicolinate reductase; Provisional; Region: PRK00048 666681006676 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 666681006677 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 666681006678 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 666681006679 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 666681006680 ferric uptake regulator; Provisional; Region: fur; PRK09462 666681006681 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 666681006682 metal binding site 2 [ion binding]; metal-binding site 666681006683 putative DNA binding helix; other site 666681006684 metal binding site 1 [ion binding]; metal-binding site 666681006685 dimer interface [polypeptide binding]; other site 666681006686 structural Zn2+ binding site [ion binding]; other site 666681006687 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 666681006688 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 666681006689 Walker A/P-loop; other site 666681006690 ATP binding site [chemical binding]; other site 666681006691 Q-loop/lid; other site 666681006692 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 666681006693 ABC transporter signature motif; other site 666681006694 Walker B; other site 666681006695 D-loop; other site 666681006696 H-loop/switch region; other site 666681006697 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 666681006698 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 666681006699 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 666681006700 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 666681006701 ferrochelatase; Reviewed; Region: hemH; PRK00035 666681006702 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 666681006703 C-terminal domain interface [polypeptide binding]; other site 666681006704 active site 666681006705 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 666681006706 active site 666681006707 N-terminal domain interface [polypeptide binding]; other site 666681006708 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 666681006709 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 666681006710 NADP binding site [chemical binding]; other site 666681006711 homopentamer interface [polypeptide binding]; other site 666681006712 substrate binding site [chemical binding]; other site 666681006713 active site 666681006714 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 666681006715 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 666681006716 putative ribose interaction site [chemical binding]; other site 666681006717 putative ADP binding site [chemical binding]; other site 666681006718 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 666681006719 active site 666681006720 nucleotide binding site [chemical binding]; other site 666681006721 HIGH motif; other site 666681006722 KMSKS motif; other site 666681006723 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 666681006724 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 666681006725 putative active site [active] 666681006726 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 666681006727 binding surface 666681006728 TPR motif; other site 666681006729 Tetratricopeptide repeat; Region: TPR_16; pfam13432 666681006730 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 666681006731 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 666681006732 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 666681006733 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 666681006734 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 666681006735 active site 666681006736 intersubunit interface [polypeptide binding]; other site 666681006737 catalytic residue [active] 666681006738 phosphogluconate dehydratase; Validated; Region: PRK09054 666681006739 6-phosphogluconate dehydratase; Region: edd; TIGR01196 666681006740 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 666681006741 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 666681006742 active site 666681006743 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 666681006744 O-Antigen ligase; Region: Wzy_C; pfam04932 666681006745 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 666681006746 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 666681006747 putative metal binding site; other site 666681006748 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 666681006749 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 666681006750 putative active site [active] 666681006751 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 666681006752 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 666681006753 putative active site [active] 666681006754 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 666681006755 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 666681006756 putative acyl-acceptor binding pocket; other site 666681006757 heat shock protein GrpE; Provisional; Region: PRK14140 666681006758 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 666681006759 dimer interface [polypeptide binding]; other site 666681006760 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 666681006761 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 666681006762 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 666681006763 nucleotide binding site [chemical binding]; other site 666681006764 chaperone protein DnaJ; Provisional; Region: PRK10767 666681006765 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 666681006766 HSP70 interaction site [polypeptide binding]; other site 666681006767 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 666681006768 substrate binding site [polypeptide binding]; other site 666681006769 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 666681006770 Zn binding sites [ion binding]; other site 666681006771 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 666681006772 dimer interface [polypeptide binding]; other site 666681006773 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 666681006774 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 666681006775 CAP-like domain; other site 666681006776 active site 666681006777 primary dimer interface [polypeptide binding]; other site 666681006778 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 666681006779 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 666681006780 ATP binding site [chemical binding]; other site 666681006781 Mg2+ binding site [ion binding]; other site 666681006782 G-X-G motif; other site 666681006783 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 666681006784 anchoring element; other site 666681006785 dimer interface [polypeptide binding]; other site 666681006786 ATP binding site [chemical binding]; other site 666681006787 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 666681006788 active site 666681006789 metal binding site [ion binding]; metal-binding site 666681006790 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 666681006791 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 666681006792 catalytic residues [active] 666681006793 DNA-binding response regulator CreB; Provisional; Region: PRK11083 666681006794 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 666681006795 active site 666681006796 phosphorylation site [posttranslational modification] 666681006797 intermolecular recognition site; other site 666681006798 dimerization interface [polypeptide binding]; other site 666681006799 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 666681006800 DNA binding site [nucleotide binding] 666681006801 sensory histidine kinase CreC; Provisional; Region: PRK11100 666681006802 HAMP domain; Region: HAMP; pfam00672 666681006803 dimerization interface [polypeptide binding]; other site 666681006804 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 666681006805 dimer interface [polypeptide binding]; other site 666681006806 phosphorylation site [posttranslational modification] 666681006807 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 666681006808 ATP binding site [chemical binding]; other site 666681006809 Mg2+ binding site [ion binding]; other site 666681006810 G-X-G motif; other site 666681006811 inner membrane protein; Provisional; Region: PRK11715 666681006812 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 666681006813 GIY-YIG motif/motif A; other site 666681006814 putative active site [active] 666681006815 putative metal binding site [ion binding]; other site 666681006816 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 666681006817 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 666681006818 dimer interface [polypeptide binding]; other site 666681006819 active site 666681006820 metal binding site [ion binding]; metal-binding site 666681006821 glutathione binding site [chemical binding]; other site 666681006822 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 666681006823 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 666681006824 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 666681006825 active site 666681006826 (T/H)XGH motif; other site 666681006827 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 666681006828 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 666681006829 S-adenosylmethionine binding site [chemical binding]; other site 666681006830 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 666681006831 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 666681006832 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 666681006833 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 666681006834 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 666681006835 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 666681006836 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 666681006837 Predicted transporter component [General function prediction only]; Region: COG2391 666681006838 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 666681006839 Predicted transporter component [General function prediction only]; Region: COG2391 666681006840 Sulphur transport; Region: Sulf_transp; pfam04143 666681006841 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 666681006842 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 666681006843 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 666681006844 P loop; other site 666681006845 GTP binding site [chemical binding]; other site 666681006846 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 666681006847 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 666681006848 Walker A/P-loop; other site 666681006849 ATP binding site [chemical binding]; other site 666681006850 Q-loop/lid; other site 666681006851 ABC transporter signature motif; other site 666681006852 Walker B; other site 666681006853 D-loop; other site 666681006854 H-loop/switch region; other site 666681006855 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 666681006856 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 666681006857 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 666681006858 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 666681006859 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 666681006860 GAF domain; Region: GAF; pfam01590 666681006861 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681006862 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681006863 metal binding site [ion binding]; metal-binding site 666681006864 active site 666681006865 I-site; other site 666681006866 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 666681006867 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 666681006868 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 666681006869 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 666681006870 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 666681006871 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 666681006872 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 666681006873 dimer interface [polypeptide binding]; other site 666681006874 active site 666681006875 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 666681006876 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 666681006877 putative substrate translocation pore; other site 666681006878 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 666681006879 TAP-like protein; Region: Abhydrolase_4; pfam08386 666681006880 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 666681006881 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 666681006882 Transposase; Region: DEDD_Tnp_IS110; pfam01548 666681006883 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 666681006884 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 666681006885 Autotransporter beta-domain; Region: Autotransporter; smart00869 666681006886 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 666681006887 hypothetical protein; Provisional; Region: PRK05409 666681006888 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 666681006889 catalytic residues [active] 666681006890 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 666681006891 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 666681006892 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 666681006893 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 666681006894 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 666681006895 DNA binding residues [nucleotide binding] 666681006896 Integrase core domain; Region: rve; pfam00665 666681006897 transposase/IS protein; Provisional; Region: PRK09183 666681006898 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 666681006899 Walker A motif; other site 666681006900 ATP binding site [chemical binding]; other site 666681006901 Walker B motif; other site 666681006902 arginine finger; other site 666681006903 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 666681006904 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 666681006905 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 666681006906 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 666681006907 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 666681006908 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 666681006909 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 666681006910 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 666681006911 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 666681006912 protein binding site [polypeptide binding]; other site 666681006913 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 666681006914 protein binding site [polypeptide binding]; other site 666681006915 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 666681006916 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 666681006917 putative dimer interface [polypeptide binding]; other site 666681006918 photoactive yellow protein; Region: photo_yellow; TIGR02373 666681006919 PAS domain S-box; Region: sensory_box; TIGR00229 666681006920 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 666681006921 putative active site [active] 666681006922 heme pocket [chemical binding]; other site 666681006923 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681006924 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681006925 metal binding site [ion binding]; metal-binding site 666681006926 active site 666681006927 I-site; other site 666681006928 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 666681006929 AMP binding site [chemical binding]; other site 666681006930 active site 666681006931 acyl-activating enzyme (AAE) consensus motif; other site 666681006932 CoA binding site [chemical binding]; other site 666681006933 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 666681006934 active sites [active] 666681006935 tetramer interface [polypeptide binding]; other site 666681006936 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 666681006937 Sensors of blue-light using FAD; Region: BLUF; pfam04940 666681006938 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 666681006939 PAS fold; Region: PAS_4; pfam08448 666681006940 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 666681006941 putative active site [active] 666681006942 heme pocket [chemical binding]; other site 666681006943 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681006944 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681006945 metal binding site [ion binding]; metal-binding site 666681006946 active site 666681006947 I-site; other site 666681006948 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 666681006949 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 666681006950 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 666681006951 substrate binding pocket [chemical binding]; other site 666681006952 membrane-bound complex binding site; other site 666681006953 hinge residues; other site 666681006954 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 666681006955 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 666681006956 putative active site [active] 666681006957 heme pocket [chemical binding]; other site 666681006958 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 666681006959 putative active site [active] 666681006960 heme pocket [chemical binding]; other site 666681006961 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681006962 active site 666681006963 I-site; other site 666681006964 metal binding site [ion binding]; metal-binding site 666681006965 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 666681006966 MASE1; Region: MASE1; cl17823 666681006967 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681006968 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681006969 metal binding site [ion binding]; metal-binding site 666681006970 active site 666681006971 I-site; other site 666681006972 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 666681006973 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 666681006974 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 666681006975 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 666681006976 DNA binding residues [nucleotide binding] 666681006977 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 666681006978 Dynamin family; Region: Dynamin_N; pfam00350 666681006979 G1 box; other site 666681006980 GTP/Mg2+ binding site [chemical binding]; other site 666681006981 G2 box; other site 666681006982 Switch I region; other site 666681006983 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 666681006984 G3 box; other site 666681006985 Switch II region; other site 666681006986 GTP/Mg2+ binding site [chemical binding]; other site 666681006987 G4 box; other site 666681006988 G5 box; other site 666681006989 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 666681006990 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 666681006991 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 666681006992 S-adenosylmethionine binding site [chemical binding]; other site 666681006993 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 666681006994 SCP-2 sterol transfer family; Region: SCP2; pfam02036 666681006995 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 666681006996 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; cd05120 666681006997 active site 666681006998 substrate binding site [chemical binding]; other site 666681006999 ATP binding site [chemical binding]; other site 666681007000 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 666681007001 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 666681007002 DNA binding site [nucleotide binding] 666681007003 catalytic residue [active] 666681007004 H2TH interface [polypeptide binding]; other site 666681007005 putative catalytic residues [active] 666681007006 turnover-facilitating residue; other site 666681007007 intercalation triad [nucleotide binding]; other site 666681007008 8OG recognition residue [nucleotide binding]; other site 666681007009 putative reading head residues; other site 666681007010 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 666681007011 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 666681007012 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 666681007013 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 666681007014 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 666681007015 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 666681007016 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 666681007017 Walker A/P-loop; other site 666681007018 ATP binding site [chemical binding]; other site 666681007019 Q-loop/lid; other site 666681007020 ABC transporter signature motif; other site 666681007021 Walker B; other site 666681007022 D-loop; other site 666681007023 H-loop/switch region; other site 666681007024 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 666681007025 TPR motif; other site 666681007026 binding surface 666681007027 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 666681007028 binding surface 666681007029 TPR motif; other site 666681007030 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 666681007031 TPR motif; other site 666681007032 binding surface 666681007033 Tetratricopeptide repeat; Region: TPR_12; pfam13424 666681007034 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 666681007035 binding surface 666681007036 TPR motif; other site 666681007037 TPR repeat; Region: TPR_11; pfam13414 666681007038 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 666681007039 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 666681007040 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 666681007041 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 666681007042 active site 666681007043 zinc binding site [ion binding]; other site 666681007044 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 666681007045 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 666681007046 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 666681007047 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 666681007048 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 666681007049 active site 666681007050 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 666681007051 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 666681007052 5S rRNA interface [nucleotide binding]; other site 666681007053 CTC domain interface [polypeptide binding]; other site 666681007054 L16 interface [polypeptide binding]; other site 666681007055 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 666681007056 putative active site [active] 666681007057 catalytic residue [active] 666681007058 GTP-binding protein YchF; Reviewed; Region: PRK09601 666681007059 YchF GTPase; Region: YchF; cd01900 666681007060 G1 box; other site 666681007061 GTP/Mg2+ binding site [chemical binding]; other site 666681007062 Switch I region; other site 666681007063 G2 box; other site 666681007064 Switch II region; other site 666681007065 G3 box; other site 666681007066 G4 box; other site 666681007067 G5 box; other site 666681007068 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 666681007069 integrase; Provisional; Region: PRK09692 666681007070 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 666681007071 active site 666681007072 Int/Topo IB signature motif; other site 666681007073 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 666681007074 Predicted helicase [General function prediction only]; Region: COG4889 666681007075 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 666681007076 non-specific DNA binding site [nucleotide binding]; other site 666681007077 salt bridge; other site 666681007078 sequence-specific DNA binding site [nucleotide binding]; other site 666681007079 Dodecin; Region: Dodecin; pfam07311 666681007080 PqqA family; Region: PqqA; cl15372 666681007081 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 666681007082 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 666681007083 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 666681007084 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 666681007085 EF-hand domain pair; Region: EF_hand_5; pfam13499 666681007086 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 666681007087 Ca2+ binding site [ion binding]; other site 666681007088 C factor cell-cell signaling protein; Provisional; Region: PRK09009 666681007089 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 666681007090 NADP binding site [chemical binding]; other site 666681007091 homodimer interface [polypeptide binding]; other site 666681007092 active site 666681007093 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 666681007094 Protein of unknown function, DUF482; Region: DUF482; pfam04339 666681007095 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 666681007096 EF-hand domain pair; Region: EF_hand_5; pfam13499 666681007097 Ca2+ binding site [ion binding]; other site 666681007098 osmolarity response regulator; Provisional; Region: ompR; PRK09468 666681007099 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 666681007100 active site 666681007101 phosphorylation site [posttranslational modification] 666681007102 intermolecular recognition site; other site 666681007103 dimerization interface [polypeptide binding]; other site 666681007104 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 666681007105 DNA binding site [nucleotide binding] 666681007106 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 666681007107 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 666681007108 dimerization interface [polypeptide binding]; other site 666681007109 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 666681007110 dimer interface [polypeptide binding]; other site 666681007111 phosphorylation site [posttranslational modification] 666681007112 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 666681007113 ATP binding site [chemical binding]; other site 666681007114 Mg2+ binding site [ion binding]; other site 666681007115 G-X-G motif; other site 666681007116 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 666681007117 PAS fold; Region: PAS_4; pfam08448 666681007118 putative active site [active] 666681007119 heme pocket [chemical binding]; other site 666681007120 PAS domain; Region: PAS_9; pfam13426 666681007121 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 666681007122 putative active site [active] 666681007123 heme pocket [chemical binding]; other site 666681007124 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681007125 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681007126 metal binding site [ion binding]; metal-binding site 666681007127 active site 666681007128 I-site; other site 666681007129 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 666681007130 siroheme synthase; Provisional; Region: cysG; PRK10637 666681007131 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 666681007132 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 666681007133 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 666681007134 active site 666681007135 SAM binding site [chemical binding]; other site 666681007136 homodimer interface [polypeptide binding]; other site 666681007137 Scramblase; Region: Scramblase; pfam03803 666681007138 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 666681007139 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 666681007140 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 666681007141 FeS/SAM binding site; other site 666681007142 TRAM domain; Region: TRAM; pfam01938 666681007143 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 666681007144 PhoH-like protein; Region: PhoH; pfam02562 666681007145 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 666681007146 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 666681007147 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 666681007148 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 666681007149 Transporter associated domain; Region: CorC_HlyC; smart01091 666681007150 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 666681007151 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 666681007152 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 666681007153 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 666681007154 putative active site [active] 666681007155 catalytic triad [active] 666681007156 putative dimer interface [polypeptide binding]; other site 666681007157 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 666681007158 dimer interface [polypeptide binding]; other site 666681007159 motif 1; other site 666681007160 active site 666681007161 motif 2; other site 666681007162 motif 3; other site 666681007163 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 666681007164 GIY-YIG motif/motif A; other site 666681007165 putative active site [active] 666681007166 putative metal binding site [ion binding]; other site 666681007167 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 666681007168 DALR anticodon binding domain; Region: DALR_1; pfam05746 666681007169 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 666681007170 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 666681007171 active site 666681007172 motif I; other site 666681007173 motif II; other site 666681007174 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 666681007175 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 666681007176 putative acyl-acceptor binding pocket; other site 666681007177 Protein of unknown function DUF45; Region: DUF45; pfam01863 666681007178 Protein of unknown function (DUF805); Region: DUF805; pfam05656 666681007179 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 666681007180 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 666681007181 Cu(I) binding site [ion binding]; other site 666681007182 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 666681007183 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 666681007184 homodimer interface [polypeptide binding]; other site 666681007185 substrate-cofactor binding pocket; other site 666681007186 catalytic residue [active] 666681007187 Zinc-finger domain; Region: zf-CHCC; cl01821 666681007188 glutamate racemase; Provisional; Region: PRK00865 666681007189 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 666681007190 poly(A) polymerase; Region: pcnB; TIGR01942 666681007191 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 666681007192 active site 666681007193 NTP binding site [chemical binding]; other site 666681007194 metal binding triad [ion binding]; metal-binding site 666681007195 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 666681007196 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 666681007197 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 666681007198 catalytic center binding site [active] 666681007199 ATP binding site [chemical binding]; other site 666681007200 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 666681007201 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 666681007202 Substrate-binding site [chemical binding]; other site 666681007203 Substrate specificity [chemical binding]; other site 666681007204 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 666681007205 oligomerization interface [polypeptide binding]; other site 666681007206 active site 666681007207 metal binding site [ion binding]; metal-binding site 666681007208 Pantoate-beta-alanine ligase; Region: PanC; cd00560 666681007209 pantoate--beta-alanine ligase; Region: panC; TIGR00018 666681007210 active site 666681007211 ATP-binding site [chemical binding]; other site 666681007212 pantoate-binding site; other site 666681007213 HXXH motif; other site 666681007214 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 666681007215 tetramerization interface [polypeptide binding]; other site 666681007216 active site 666681007217 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 666681007218 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 666681007219 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 666681007220 DNA photolyase; Region: DNA_photolyase; pfam00875 666681007221 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 666681007222 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 666681007223 intersubunit interface [polypeptide binding]; other site 666681007224 active site 666681007225 zinc binding site [ion binding]; other site 666681007226 Na+ binding site [ion binding]; other site 666681007227 triosephosphate isomerase; Provisional; Region: PRK14567 666681007228 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 666681007229 substrate binding site [chemical binding]; other site 666681007230 dimer interface [polypeptide binding]; other site 666681007231 catalytic triad [active] 666681007232 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 666681007233 AMP binding site [chemical binding]; other site 666681007234 metal binding site [ion binding]; metal-binding site 666681007235 active site 666681007236 VacJ like lipoprotein; Region: VacJ; cl01073 666681007237 peptidase PmbA; Provisional; Region: PRK11040 666681007238 hypothetical protein; Provisional; Region: PRK05255 666681007239 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 666681007240 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 666681007241 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 666681007242 protein binding site [polypeptide binding]; other site 666681007243 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 666681007244 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 666681007245 MPT binding site; other site 666681007246 trimer interface [polypeptide binding]; other site 666681007247 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 666681007248 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 666681007249 thiamine monophosphate kinase; Provisional; Region: PRK05731 666681007250 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 666681007251 ATP binding site [chemical binding]; other site 666681007252 dimerization interface [polypeptide binding]; other site 666681007253 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 666681007254 tetramer interfaces [polypeptide binding]; other site 666681007255 binuclear metal-binding site [ion binding]; other site 666681007256 Competence-damaged protein; Region: CinA; cl00666 666681007257 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 666681007258 active site 666681007259 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 666681007260 active site 666681007261 catalytic residues [active] 666681007262 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 666681007263 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 666681007264 Putative methyltransferase; Region: Methyltransf_20; pfam12147 666681007265 SnoaL-like domain; Region: SnoaL_3; pfam13474 666681007266 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 666681007267 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 666681007268 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 666681007269 recombinase A; Provisional; Region: recA; PRK09354 666681007270 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 666681007271 hexamer interface [polypeptide binding]; other site 666681007272 Walker A motif; other site 666681007273 ATP binding site [chemical binding]; other site 666681007274 Walker B motif; other site 666681007275 recombination regulator RecX; Reviewed; Region: recX; PRK00117 666681007276 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 666681007277 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 666681007278 motif 1; other site 666681007279 active site 666681007280 motif 2; other site 666681007281 motif 3; other site 666681007282 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 666681007283 aspartate kinase; Reviewed; Region: PRK06635 666681007284 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 666681007285 putative nucleotide binding site [chemical binding]; other site 666681007286 putative catalytic residues [active] 666681007287 putative Mg ion binding site [ion binding]; other site 666681007288 putative aspartate binding site [chemical binding]; other site 666681007289 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 666681007290 putative allosteric regulatory site; other site 666681007291 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 666681007292 putative allosteric regulatory residue; other site 666681007293 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 666681007294 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 666681007295 Int/Topo IB signature motif; other site 666681007296 multiple promoter invertase; Provisional; Region: mpi; PRK13413 666681007297 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 666681007298 catalytic residues [active] 666681007299 catalytic nucleophile [active] 666681007300 Presynaptic Site I dimer interface [polypeptide binding]; other site 666681007301 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 666681007302 Synaptic Flat tetramer interface [polypeptide binding]; other site 666681007303 Synaptic Site I dimer interface [polypeptide binding]; other site 666681007304 DNA binding site [nucleotide binding] 666681007305 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 666681007306 DNA-binding interface [nucleotide binding]; DNA binding site 666681007307 Staphylococcal nuclease homologues; Region: SNc; smart00318 666681007308 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 666681007309 Catalytic site; other site 666681007310 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 666681007311 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 666681007312 putative active site [active] 666681007313 putative NTP binding site [chemical binding]; other site 666681007314 putative nucleic acid binding site [nucleotide binding]; other site 666681007315 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 666681007316 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 666681007317 non-specific DNA binding site [nucleotide binding]; other site 666681007318 salt bridge; other site 666681007319 sequence-specific DNA binding site [nucleotide binding]; other site 666681007320 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 666681007321 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 666681007322 active site 666681007323 DNA binding site [nucleotide binding] 666681007324 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 666681007325 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 666681007326 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 666681007327 Catalytic site [active] 666681007328 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; cd00092 666681007329 non-specific DNA interactions [nucleotide binding]; other site 666681007330 DNA binding site [nucleotide binding] 666681007331 sequence specific DNA binding site [nucleotide binding]; other site 666681007332 putative cAMP binding site [chemical binding]; other site 666681007333 integrase; Provisional; Region: int; PHA02601 666681007334 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 666681007335 active site 666681007336 DNA binding site [nucleotide binding] 666681007337 Int/Topo IB signature motif; other site 666681007338 MASE1; Region: MASE1; pfam05231 666681007339 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 666681007340 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 666681007341 PAS domain; Region: PAS_9; pfam13426 666681007342 putative active site [active] 666681007343 heme pocket [chemical binding]; other site 666681007344 PAS domain S-box; Region: sensory_box; TIGR00229 666681007345 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 666681007346 putative active site [active] 666681007347 heme pocket [chemical binding]; other site 666681007348 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681007349 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681007350 metal binding site [ion binding]; metal-binding site 666681007351 active site 666681007352 I-site; other site 666681007353 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 666681007354 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 666681007355 TrkA-N domain; Region: TrkA_N; pfam02254 666681007356 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 666681007357 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 666681007358 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 666681007359 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 666681007360 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 666681007361 active site residue [active] 666681007362 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 666681007363 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 666681007364 DNA-binding site [nucleotide binding]; DNA binding site 666681007365 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 666681007366 pyridoxal 5'-phosphate binding site [chemical binding]; other site 666681007367 homodimer interface [polypeptide binding]; other site 666681007368 catalytic residue [active] 666681007369 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 666681007370 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 666681007371 putative NAD(P) binding site [chemical binding]; other site 666681007372 putative substrate binding site [chemical binding]; other site 666681007373 catalytic Zn binding site [ion binding]; other site 666681007374 structural Zn binding site [ion binding]; other site 666681007375 dimer interface [polypeptide binding]; other site 666681007376 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cl00470 666681007377 SOS regulatory protein LexA; Region: lexA; TIGR00498 666681007378 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 666681007379 Catalytic site [active] 666681007380 MarC family integral membrane protein; Region: MarC; cl00919 666681007381 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 666681007382 Amidase; Region: Amidase; pfam01425 666681007383 urea carboxylase; Region: urea_carbox; TIGR02712 666681007384 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 666681007385 ATP-grasp domain; Region: ATP-grasp_4; cl17255 666681007386 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 666681007387 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 666681007388 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 666681007389 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 666681007390 carboxyltransferase (CT) interaction site; other site 666681007391 biotinylation site [posttranslational modification]; other site 666681007392 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 666681007393 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 666681007394 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 666681007395 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 666681007396 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 666681007397 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 666681007398 Creatinine amidohydrolase; Region: Creatininase; pfam02633 666681007399 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 666681007400 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 666681007401 Walker A/P-loop; other site 666681007402 ATP binding site [chemical binding]; other site 666681007403 Q-loop/lid; other site 666681007404 ABC transporter signature motif; other site 666681007405 Walker B; other site 666681007406 D-loop; other site 666681007407 H-loop/switch region; other site 666681007408 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 666681007409 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 666681007410 dimer interface [polypeptide binding]; other site 666681007411 conserved gate region; other site 666681007412 putative PBP binding loops; other site 666681007413 ABC-ATPase subunit interface; other site 666681007414 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 666681007415 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 666681007416 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 666681007417 MarR family; Region: MarR_2; pfam12802 666681007418 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 666681007419 Major Facilitator Superfamily; Region: MFS_1; pfam07690 666681007420 putative substrate translocation pore; other site 666681007421 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 666681007422 metal ion-dependent adhesion site (MIDAS); other site 666681007423 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 666681007424 metal ion-dependent adhesion site (MIDAS); other site 666681007425 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 666681007426 Protein of unknown function DUF58; Region: DUF58; pfam01882 666681007427 MoxR-like ATPases [General function prediction only]; Region: COG0714 666681007428 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 666681007429 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 666681007430 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 666681007431 MarR family; Region: MarR_2; cl17246 666681007432 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 666681007433 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 666681007434 Fusaric acid resistance protein family; Region: FUSC; pfam04632 666681007435 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 666681007436 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 666681007437 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 666681007438 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 666681007439 HlyD family secretion protein; Region: HlyD_3; pfam13437 666681007440 Transcriptional regulator [Transcription]; Region: LysR; COG0583 666681007441 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 666681007442 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 666681007443 putative effector binding pocket; other site 666681007444 dimerization interface [polypeptide binding]; other site 666681007445 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 666681007446 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 666681007447 catalytic loop [active] 666681007448 iron binding site [ion binding]; other site 666681007449 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 666681007450 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 666681007451 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 666681007452 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 666681007453 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 666681007454 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 666681007455 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 666681007456 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 666681007457 XdhC Rossmann domain; Region: XdhC_C; pfam13478 666681007458 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 666681007459 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 666681007460 Ligand binding site; other site 666681007461 metal-binding site 666681007462 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 666681007463 active site 666681007464 tetramer interface; other site 666681007465 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 666681007466 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 666681007467 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 666681007468 dimer interface [polypeptide binding]; other site 666681007469 active site 666681007470 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 666681007471 WcbM_like is a subfamily of nucleotidyl transferases; Region: NTP_transferase_WcbM_like; cd06915 666681007472 Substrate binding site; other site 666681007473 Mg++ binding site; other site 666681007474 metal-binding site 666681007475 Mg++ binding site; other site 666681007476 metal-binding site 666681007477 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 666681007478 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 666681007479 active site 666681007480 motif I; other site 666681007481 motif II; other site 666681007482 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 666681007483 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 666681007484 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 666681007485 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 666681007486 DXD motif; other site 666681007487 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 666681007488 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 666681007489 NAD binding site [chemical binding]; other site 666681007490 homodimer interface [polypeptide binding]; other site 666681007491 active site 666681007492 substrate binding site [chemical binding]; other site 666681007493 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 666681007494 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 666681007495 Acyltransferase family; Region: Acyl_transf_3; pfam01757 666681007496 OpgC protein; Region: OpgC_C; cl17858 666681007497 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 666681007498 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 666681007499 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 666681007500 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 666681007501 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 666681007502 putative ADP-binding pocket [chemical binding]; other site 666681007503 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 666681007504 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 666681007505 NAD(P) binding site [chemical binding]; other site 666681007506 active site 666681007507 O-Antigen ligase; Region: Wzy_C; cl04850 666681007508 O-Antigen ligase; Region: Wzy_C; pfam04932 666681007509 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK12457 666681007510 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 666681007511 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 666681007512 active site 666681007513 Putative rhamnosyl transferase; Region: Rhamno_transf; pfam11316 666681007514 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 666681007515 colanic acid exporter; Provisional; Region: PRK10459 666681007516 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 666681007517 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 666681007518 Protein of unknown function (DUF3485); Region: DUF3485; pfam11984 666681007519 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 666681007520 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 666681007521 chain length determinant protein tyrosine kinase EpsG; Region: EpsG; TIGR03029 666681007522 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 666681007523 chain length determinant protein EpsF; Region: EpsF; TIGR03017 666681007524 Chain length determinant protein; Region: Wzz; pfam02706 666681007525 Chain length determinant protein; Region: Wzz; cl15801 666681007526 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 666681007527 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 666681007528 SLBB domain; Region: SLBB; pfam10531 666681007529 SLBB domain; Region: SLBB; pfam10531 666681007530 SurA N-terminal domain; Region: SurA_N_3; cl07813 666681007531 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 666681007532 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 666681007533 exopolysaccharide biosynthesis operon protein EpsL; Region: EpsL; TIGR03014 666681007534 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 666681007535 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 666681007536 ligand binding site [chemical binding]; other site 666681007537 flexible hinge region; other site 666681007538 transcriptional regulator EpsA; Region: EpsA; TIGR03020 666681007539 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 666681007540 DNA binding residues [nucleotide binding] 666681007541 dimerization interface [polypeptide binding]; other site 666681007542 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 666681007543 Bacterial sugar transferase; Region: Bac_transf; pfam02397 666681007544 PEP-CTERM motif; Region: VPEP; pfam07589 666681007545 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 666681007546 UbiA prenyltransferase family; Region: UbiA; pfam01040 666681007547 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 666681007548 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 666681007549 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 666681007550 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 666681007551 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 666681007552 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 666681007553 Subunit III/VIIa interface [polypeptide binding]; other site 666681007554 Phospholipid binding site [chemical binding]; other site 666681007555 Subunit I/III interface [polypeptide binding]; other site 666681007556 Subunit III/VIb interface [polypeptide binding]; other site 666681007557 Subunit III/VIa interface; other site 666681007558 Subunit III/Vb interface [polypeptide binding]; other site 666681007559 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 666681007560 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 666681007561 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 666681007562 Subunit I/III interface [polypeptide binding]; other site 666681007563 D-pathway; other site 666681007564 Subunit I/VIIc interface [polypeptide binding]; other site 666681007565 Subunit I/IV interface [polypeptide binding]; other site 666681007566 Subunit I/II interface [polypeptide binding]; other site 666681007567 Low-spin heme (heme a) binding site [chemical binding]; other site 666681007568 Subunit I/VIIa interface [polypeptide binding]; other site 666681007569 Subunit I/VIa interface [polypeptide binding]; other site 666681007570 Dimer interface; other site 666681007571 Putative water exit pathway; other site 666681007572 Binuclear center (heme a3/CuB) [ion binding]; other site 666681007573 K-pathway; other site 666681007574 Subunit I/Vb interface [polypeptide binding]; other site 666681007575 Putative proton exit pathway; other site 666681007576 Subunit I/VIb interface; other site 666681007577 Subunit I/VIc interface [polypeptide binding]; other site 666681007578 Electron transfer pathway; other site 666681007579 Subunit I/VIIIb interface [polypeptide binding]; other site 666681007580 Subunit I/VIIb interface [polypeptide binding]; other site 666681007581 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 666681007582 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 666681007583 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 666681007584 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 666681007585 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 666681007586 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 666681007587 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 666681007588 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 666681007589 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 666681007590 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 666681007591 PRD domain protein EF_0829/AHA_3910; Region: EF_0829; TIGR03582 666681007592 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 666681007593 N-acetyl-D-glucosamine binding site [chemical binding]; other site 666681007594 catalytic residue [active] 666681007595 prolyl-tRNA synthetase; Provisional; Region: PRK09194 666681007596 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 666681007597 dimer interface [polypeptide binding]; other site 666681007598 motif 1; other site 666681007599 active site 666681007600 motif 2; other site 666681007601 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 666681007602 putative deacylase active site [active] 666681007603 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 666681007604 active site 666681007605 motif 3; other site 666681007606 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 666681007607 anticodon binding site; other site 666681007608 Repair protein; Region: Repair_PSII; pfam04536 666681007609 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 666681007610 Repair protein; Region: Repair_PSII; pfam04536 666681007611 LemA family; Region: LemA; pfam04011 666681007612 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 666681007613 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 666681007614 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 666681007615 Coenzyme A binding pocket [chemical binding]; other site 666681007616 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 666681007617 Glycoprotease family; Region: Peptidase_M22; pfam00814 666681007618 hypothetical protein; Provisional; Region: PRK09256 666681007619 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 666681007620 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 666681007621 Pirin-related protein [General function prediction only]; Region: COG1741 666681007622 Pirin; Region: Pirin; pfam02678 666681007623 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 666681007624 Uncharacterized conserved protein [Function unknown]; Region: COG2353 666681007625 Transcriptional regulator [Transcription]; Region: LysR; COG0583 666681007626 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 666681007627 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 666681007628 dimerization interface [polypeptide binding]; other site 666681007629 PEP-CTERM motif; Region: VPEP; pfam07589 666681007630 MASE1; Region: MASE1; pfam05231 666681007631 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 666681007632 PAS fold; Region: PAS_3; pfam08447 666681007633 putative active site [active] 666681007634 heme pocket [chemical binding]; other site 666681007635 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 666681007636 GAF domain; Region: GAF_3; pfam13492 666681007637 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 666681007638 PAS domain; Region: PAS_9; pfam13426 666681007639 putative active site [active] 666681007640 heme pocket [chemical binding]; other site 666681007641 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681007642 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681007643 metal binding site [ion binding]; metal-binding site 666681007644 active site 666681007645 I-site; other site 666681007646 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 666681007647 acyl carrier protein; Provisional; Region: PRK09184 666681007648 Predicted membrane protein [Function unknown]; Region: COG4648 666681007649 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 666681007650 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 666681007651 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 666681007652 acyl-activating enzyme (AAE) consensus motif; other site 666681007653 acyl-activating enzyme (AAE) consensus motif; other site 666681007654 AMP binding site [chemical binding]; other site 666681007655 active site 666681007656 CoA binding site [chemical binding]; other site 666681007657 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 666681007658 active site 2 [active] 666681007659 dimer interface [polypeptide binding]; other site 666681007660 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 666681007661 putative acyl-acceptor binding pocket; other site 666681007662 Predicted exporter [General function prediction only]; Region: COG4258 666681007663 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 666681007664 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 666681007665 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 666681007666 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 666681007667 NodB motif; other site 666681007668 active site 666681007669 catalytic site [active] 666681007670 metal binding site [ion binding]; metal-binding site 666681007671 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 666681007672 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 666681007673 dimer interface [polypeptide binding]; other site 666681007674 active site 666681007675 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 666681007676 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 666681007677 putative active site 1 [active] 666681007678 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 666681007679 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 666681007680 NAD(P) binding site [chemical binding]; other site 666681007681 active site 666681007682 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 666681007683 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 666681007684 Ligand binding site; other site 666681007685 Putative Catalytic site; other site 666681007686 DXD motif; other site 666681007687 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 666681007688 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 666681007689 putative acyl-acceptor binding pocket; other site 666681007690 This group of proteins belong to a large family of YjgF/YER057c/UK114-like 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...; Region: YjgF_YER057c_UK114_like_5; cd06153 666681007691 homotrimer interaction site [polypeptide binding]; other site 666681007692 putative active site [active] 666681007693 Sensors of blue-light using FAD; Region: BLUF; pfam04940 666681007694 DNA photolyase; Region: DNA_photolyase; pfam00875 666681007695 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 666681007696 MAPEG family; Region: MAPEG; cl09190 666681007697 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 666681007698 MOSC domain; Region: MOSC; pfam03473 666681007699 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 666681007700 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 666681007701 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 666681007702 PAS domain S-box; Region: sensory_box; TIGR00229 666681007703 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 666681007704 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 666681007705 putative active site [active] 666681007706 heme pocket [chemical binding]; other site 666681007707 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 666681007708 dimer interface [polypeptide binding]; other site 666681007709 phosphorylation site [posttranslational modification] 666681007710 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 666681007711 ATP binding site [chemical binding]; other site 666681007712 Mg2+ binding site [ion binding]; other site 666681007713 G-X-G motif; other site 666681007714 Response regulator receiver domain; Region: Response_reg; pfam00072 666681007715 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 666681007716 active site 666681007717 phosphorylation site [posttranslational modification] 666681007718 intermolecular recognition site; other site 666681007719 dimerization interface [polypeptide binding]; other site 666681007720 Response regulator receiver domain; Region: Response_reg; pfam00072 666681007721 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 666681007722 active site 666681007723 phosphorylation site [posttranslational modification] 666681007724 intermolecular recognition site; other site 666681007725 dimerization interface [polypeptide binding]; other site 666681007726 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681007727 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681007728 metal binding site [ion binding]; metal-binding site 666681007729 active site 666681007730 I-site; other site 666681007731 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 666681007732 cyclase homology domain; Region: CHD; cd07302 666681007733 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 666681007734 nucleotidyl binding site; other site 666681007735 metal binding site [ion binding]; metal-binding site 666681007736 dimer interface [polypeptide binding]; other site 666681007737 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 666681007738 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 666681007739 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 666681007740 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 666681007741 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 666681007742 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 666681007743 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 666681007744 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 666681007745 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 666681007746 active site 666681007747 DNA binding site [nucleotide binding] 666681007748 Int/Topo IB signature motif; other site 666681007749 signal recognition particle protein; Provisional; Region: PRK10867 666681007750 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 666681007751 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 666681007752 P loop; other site 666681007753 GTP binding site [chemical binding]; other site 666681007754 Signal peptide binding domain; Region: SRP_SPB; pfam02978 666681007755 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 666681007756 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 666681007757 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 666681007758 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 666681007759 EamA-like transporter family; Region: EamA; pfam00892 666681007760 EamA-like transporter family; Region: EamA; pfam00892 666681007761 2-isopropylmalate synthase; Validated; Region: PRK00915 666681007762 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 666681007763 active site 666681007764 catalytic residues [active] 666681007765 metal binding site [ion binding]; metal-binding site 666681007766 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 666681007767 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 666681007768 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 666681007769 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 666681007770 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 666681007771 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 666681007772 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 666681007773 putative acyl-acceptor binding pocket; other site 666681007774 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 666681007775 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 666681007776 PEP-CTERM motif; Region: VPEP; pfam07589 666681007777 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 666681007778 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 666681007779 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 666681007780 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 666681007781 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 666681007782 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 666681007783 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 666681007784 Protein export membrane protein; Region: SecD_SecF; pfam02355 666681007785 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 666681007786 Domain of unknown function DUF21; Region: DUF21; pfam01595 666681007787 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 666681007788 Transporter associated domain; Region: CorC_HlyC; smart01091 666681007789 Uncharacterized conserved protein [Function unknown]; Region: COG2127 666681007790 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 666681007791 Clp amino terminal domain; Region: Clp_N; pfam02861 666681007792 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 666681007793 Walker A motif; other site 666681007794 ATP binding site [chemical binding]; other site 666681007795 Walker B motif; other site 666681007796 arginine finger; other site 666681007797 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 666681007798 Walker A motif; other site 666681007799 ATP binding site [chemical binding]; other site 666681007800 Walker B motif; other site 666681007801 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 666681007802 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 666681007803 GST_N family, Omega-like subfamily; composed of uncharacterized proteins with similarity to class Omega GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_Omega_like; cd03060 666681007804 putative GSH binding site (G-site) [chemical binding]; other site 666681007805 active site cysteine [active] 666681007806 putative C-terminal domain interface [polypeptide binding]; other site 666681007807 putative dimer interface [polypeptide binding]; other site 666681007808 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 666681007809 putative N-terminal domain interface [polypeptide binding]; other site 666681007810 putative dimer interface [polypeptide binding]; other site 666681007811 putative substrate binding pocket (H-site) [chemical binding]; other site 666681007812 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 666681007813 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 666681007814 quinone interaction residues [chemical binding]; other site 666681007815 active site 666681007816 catalytic residues [active] 666681007817 FMN binding site [chemical binding]; other site 666681007818 substrate binding site [chemical binding]; other site 666681007819 CHASE3 domain; Region: CHASE3; cl05000 666681007820 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681007821 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681007822 metal binding site [ion binding]; metal-binding site 666681007823 active site 666681007824 I-site; other site 666681007825 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 666681007826 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 666681007827 putative [4Fe-4S] binding site [ion binding]; other site 666681007828 putative molybdopterin cofactor binding site [chemical binding]; other site 666681007829 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 666681007830 putative molybdopterin cofactor binding site; other site 666681007831 Uncharacterized conserved protein [Function unknown]; Region: COG2850 666681007832 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 666681007833 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 666681007834 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 666681007835 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 666681007836 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 666681007837 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 666681007838 dihydrodipicolinate synthase; Region: dapA; TIGR00674 666681007839 dimer interface [polypeptide binding]; other site 666681007840 active site 666681007841 catalytic residue [active] 666681007842 electron transport complex protein RsxA; Provisional; Region: PRK05151 666681007843 ferredoxin; Provisional; Region: PRK08764 666681007844 Putative Fe-S cluster; Region: FeS; pfam04060 666681007845 4Fe-4S binding domain; Region: Fer4; cl02805 666681007846 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 666681007847 SLBB domain; Region: SLBB; pfam10531 666681007848 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 666681007849 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 666681007850 electron transport complex, RnfABCDGE type, G subunit; Region: rnfG; TIGR01947 666681007851 electron transport complex RsxE subunit; Provisional; Region: PRK12405 666681007852 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 666681007853 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 666681007854 minor groove reading motif; other site 666681007855 helix-hairpin-helix signature motif; other site 666681007856 substrate binding pocket [chemical binding]; other site 666681007857 active site 666681007858 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 666681007859 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4398 666681007860 FIST C domain; Region: FIST_C; pfam10442 666681007861 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 666681007862 RNA polymerase sigma factor; Provisional; Region: PRK12520 666681007863 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 666681007864 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 666681007865 DNA binding residues [nucleotide binding] 666681007866 Putative zinc-finger; Region: zf-HC2; pfam13490 666681007867 hypothetical protein; Provisional; Region: PRK05409 666681007868 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 666681007869 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 666681007870 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 666681007871 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 666681007872 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 666681007873 SEC-C motif; Region: SEC-C; pfam02810 666681007874 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 666681007875 Peptidase family M23; Region: Peptidase_M23; pfam01551 666681007876 Protein of unknown function (DUF721); Region: DUF721; cl02324 666681007877 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 666681007878 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 666681007879 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 666681007880 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 666681007881 dimer interface [polypeptide binding]; other site 666681007882 substrate binding site [chemical binding]; other site 666681007883 metal binding sites [ion binding]; metal-binding site 666681007884 Uncharacterized conserved protein [Function unknown]; Region: COG3339 666681007885 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 666681007886 ATP binding site [chemical binding]; other site 666681007887 active site 666681007888 substrate binding site [chemical binding]; other site 666681007889 pyruvate kinase; Provisional; Region: PRK05826 666681007890 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 666681007891 domain interfaces; other site 666681007892 active site 666681007893 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 666681007894 Phosphoglycerate kinase; Region: PGK; pfam00162 666681007895 substrate binding site [chemical binding]; other site 666681007896 hinge regions; other site 666681007897 ADP binding site [chemical binding]; other site 666681007898 catalytic site [active] 666681007899 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 666681007900 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 666681007901 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 666681007902 transketolase; Reviewed; Region: PRK12753 666681007903 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 666681007904 TPP-binding site [chemical binding]; other site 666681007905 dimer interface [polypeptide binding]; other site 666681007906 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 666681007907 PYR/PP interface [polypeptide binding]; other site 666681007908 dimer interface [polypeptide binding]; other site 666681007909 TPP binding site [chemical binding]; other site 666681007910 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 666681007911 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 666681007912 Ca2+ binding site [ion binding]; other site 666681007913 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 666681007914 DNA binding site [nucleotide binding] 666681007915 ATP-dependent DNA ligase; Region: PHA00454 666681007916 active site 666681007917 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 666681007918 DNA binding site [nucleotide binding] 666681007919 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 666681007920 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 666681007921 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 666681007922 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 666681007923 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 666681007924 putative catalytic residue [active] 666681007925 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 666681007926 RNA methyltransferase, RsmE family; Region: TIGR00046 666681007927 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 666681007928 non-specific DNA binding site [nucleotide binding]; other site 666681007929 salt bridge; other site 666681007930 sequence-specific DNA binding site [nucleotide binding]; other site 666681007931 N-acetylglutamate synthase; Validated; Region: PRK05279 666681007932 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 666681007933 putative feedback inhibition sensing region; other site 666681007934 putative nucleotide binding site [chemical binding]; other site 666681007935 putative substrate binding site [chemical binding]; other site 666681007936 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 666681007937 Coenzyme A binding pocket [chemical binding]; other site 666681007938 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 666681007939 feedback inhibition sensing region; other site 666681007940 homohexameric interface [polypeptide binding]; other site 666681007941 nucleotide binding site [chemical binding]; other site 666681007942 N-acetyl-L-glutamate binding site [chemical binding]; other site 666681007943 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 666681007944 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 666681007945 motif II; other site 666681007946 division inhibitor protein; Provisional; Region: slmA; PRK09480 666681007947 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 666681007948 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 666681007949 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 666681007950 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 666681007951 active site 666681007952 NTP binding site [chemical binding]; other site 666681007953 metal binding triad [ion binding]; metal-binding site 666681007954 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 666681007955 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 666681007956 Zn2+ binding site [ion binding]; other site 666681007957 Mg2+ binding site [ion binding]; other site 666681007958 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 666681007959 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 666681007960 putative NAD(P) binding site [chemical binding]; other site 666681007961 active site 666681007962 lytic murein transglycosylase; Provisional; Region: PRK11619 666681007963 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 666681007964 N-acetyl-D-glucosamine binding site [chemical binding]; other site 666681007965 catalytic residue [active] 666681007966 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 666681007967 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 666681007968 cell division protein FtsZ; Validated; Region: PRK09330 666681007969 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 666681007970 nucleotide binding site [chemical binding]; other site 666681007971 SulA interaction site; other site 666681007972 cell division protein FtsA; Region: ftsA; TIGR01174 666681007973 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 666681007974 nucleotide binding site [chemical binding]; other site 666681007975 Cell division protein FtsA; Region: FtsA; pfam14450 666681007976 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 666681007977 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 666681007978 Cell division protein FtsQ; Region: FtsQ; pfam03799 666681007979 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 666681007980 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 666681007981 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 666681007982 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 666681007983 FAD binding domain; Region: FAD_binding_4; pfam01565 666681007984 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 666681007985 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 666681007986 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 666681007987 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 666681007988 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 666681007989 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 666681007990 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 666681007991 active site 666681007992 homodimer interface [polypeptide binding]; other site 666681007993 cell division protein FtsW; Region: ftsW; TIGR02614 666681007994 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 666681007995 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 666681007996 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 666681007997 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 666681007998 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 666681007999 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 666681008000 Mg++ binding site [ion binding]; other site 666681008001 putative catalytic motif [active] 666681008002 putative substrate binding site [chemical binding]; other site 666681008003 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 666681008004 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 666681008005 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 666681008006 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 666681008007 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 666681008008 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 666681008009 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 666681008010 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 666681008011 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 666681008012 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 666681008013 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 666681008014 Cell division protein FtsL; Region: FtsL; pfam04999 666681008015 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 666681008016 MraW methylase family; Region: Methyltransf_5; pfam01795 666681008017 cell division protein MraZ; Reviewed; Region: PRK00326 666681008018 MraZ protein; Region: MraZ; pfam02381 666681008019 MraZ protein; Region: MraZ; pfam02381 666681008020 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 666681008021 ligand binding site [chemical binding]; other site 666681008022 active site 666681008023 UGI interface [polypeptide binding]; other site 666681008024 catalytic site [active] 666681008025 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 666681008026 active site 666681008027 substrate binding pocket [chemical binding]; other site 666681008028 dimer interface [polypeptide binding]; other site 666681008029 Predicted methyltransferases [General function prediction only]; Region: COG0313 666681008030 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 666681008031 putative SAM binding site [chemical binding]; other site 666681008032 putative homodimer interface [polypeptide binding]; other site 666681008033 hypothetical protein; Reviewed; Region: PRK12497 666681008034 BON domain; Region: BON; pfam04972 666681008035 BON domain; Region: BON; pfam04972 666681008036 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 666681008037 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 666681008038 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 666681008039 catalytic residues [active] 666681008040 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 666681008041 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 666681008042 catalytic residues [active] 666681008043 transcription termination factor Rho; Provisional; Region: rho; PRK09376 666681008044 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 666681008045 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 666681008046 RNA binding site [nucleotide binding]; other site 666681008047 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 666681008048 multimer interface [polypeptide binding]; other site 666681008049 Walker A motif; other site 666681008050 ATP binding site [chemical binding]; other site 666681008051 Walker B motif; other site 666681008052 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 666681008053 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 666681008054 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 666681008055 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 666681008056 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 666681008057 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 666681008058 catalytic loop [active] 666681008059 iron binding site [ion binding]; other site 666681008060 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 666681008061 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 666681008062 [4Fe-4S] binding site [ion binding]; other site 666681008063 molybdopterin cofactor binding site; other site 666681008064 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 666681008065 molybdopterin cofactor binding site; other site 666681008066 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 666681008067 putative dimer interface [polypeptide binding]; other site 666681008068 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 666681008069 SLBB domain; Region: SLBB; pfam10531 666681008070 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 666681008071 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 666681008072 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 666681008073 putative dimer interface [polypeptide binding]; other site 666681008074 [2Fe-2S] cluster binding site [ion binding]; other site 666681008075 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 666681008076 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 666681008077 FeS/SAM binding site; other site 666681008078 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 666681008079 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 666681008080 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 666681008081 GTP binding site; other site 666681008082 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 666681008083 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 666681008084 dimer interface [polypeptide binding]; other site 666681008085 putative functional site; other site 666681008086 putative MPT binding site; other site 666681008087 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 666681008088 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 666681008089 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 666681008090 dimerization interface [polypeptide binding]; other site 666681008091 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 666681008092 dimer interface [polypeptide binding]; other site 666681008093 phosphorylation site [posttranslational modification] 666681008094 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 666681008095 ATP binding site [chemical binding]; other site 666681008096 Mg2+ binding site [ion binding]; other site 666681008097 G-X-G motif; other site 666681008098 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 666681008099 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 666681008100 catalytic triad [active] 666681008101 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 666681008102 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 666681008103 putative active site [active] 666681008104 PhoH-like protein; Region: PhoH; pfam02562 666681008105 lysophospholipid transporter LplT; Provisional; Region: PRK11195 666681008106 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 666681008107 putative substrate translocation pore; other site 666681008108 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 666681008109 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 666681008110 Cytochrome c; Region: Cytochrom_C; cl11414 666681008111 Cytochrome c; Region: Cytochrom_C; cl11414 666681008112 Cytochrome c; Region: Cytochrom_C; cl11414 666681008113 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein; Region: ABC_peri_MoxJ_2; TIGR03871 666681008114 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 666681008115 substrate binding pocket [chemical binding]; other site 666681008116 membrane-bound complex binding site; other site 666681008117 hinge residues; other site 666681008118 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 666681008119 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 666681008120 Trp docking motif [polypeptide binding]; other site 666681008121 dimer interface [polypeptide binding]; other site 666681008122 active site 666681008123 small subunit binding site [polypeptide binding]; other site 666681008124 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 666681008125 TAP-like protein; Region: Abhydrolase_4; pfam08386 666681008126 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 666681008127 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 666681008128 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 666681008129 ligand binding site [chemical binding]; other site 666681008130 flexible hinge region; other site 666681008131 Tetratricopeptide repeat; Region: TPR_12; pfam13424 666681008132 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 666681008133 binding surface 666681008134 TPR motif; other site 666681008135 Tetratricopeptide repeat; Region: TPR_12; pfam13424 666681008136 TPR repeat; Region: TPR_11; pfam13414 666681008137 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 666681008138 binding surface 666681008139 TPR motif; other site 666681008140 Tetratricopeptide repeat; Region: TPR_16; pfam13432 666681008141 Putative 2OG-Fe(II) oxygenase; Region: 2OG-FeII_Oxy_5; pfam13759 666681008142 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 666681008143 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 666681008144 active site 666681008145 phosphorylation site [posttranslational modification] 666681008146 intermolecular recognition site; other site 666681008147 dimerization interface [polypeptide binding]; other site 666681008148 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 666681008149 Zn2+ binding site [ion binding]; other site 666681008150 Mg2+ binding site [ion binding]; other site 666681008151 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 666681008152 Response regulator receiver domain; Region: Response_reg; pfam00072 666681008153 active site 666681008154 phosphorylation site [posttranslational modification] 666681008155 intermolecular recognition site; other site 666681008156 dimerization interface [polypeptide binding]; other site 666681008157 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 666681008158 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 666681008159 dimer interface [polypeptide binding]; other site 666681008160 phosphorylation site [posttranslational modification] 666681008161 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 666681008162 ATP binding site [chemical binding]; other site 666681008163 Mg2+ binding site [ion binding]; other site 666681008164 G-X-G motif; other site 666681008165 Response regulator receiver domain; Region: Response_reg; pfam00072 666681008166 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 666681008167 active site 666681008168 phosphorylation site [posttranslational modification] 666681008169 intermolecular recognition site; other site 666681008170 dimerization interface [polypeptide binding]; other site 666681008171 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 666681008172 enoyl-CoA hydratase; Validated; Region: PRK08788 666681008173 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 666681008174 substrate binding site [chemical binding]; other site 666681008175 oxyanion hole (OAH) forming residues; other site 666681008176 trimer interface [polypeptide binding]; other site 666681008177 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 666681008178 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681008179 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681008180 metal binding site [ion binding]; metal-binding site 666681008181 active site 666681008182 I-site; other site 666681008183 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681008184 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681008185 metal binding site [ion binding]; metal-binding site 666681008186 active site 666681008187 I-site; other site 666681008188 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 666681008189 Bindin; Region: Bindin; pfam02084 666681008190 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 666681008191 active site 666681008192 Uncharacterized conserved protein [Function unknown]; Region: COG3025 666681008193 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 666681008194 putative active site [active] 666681008195 putative metal binding residues [ion binding]; other site 666681008196 signature motif; other site 666681008197 putative triphosphate binding site [ion binding]; other site 666681008198 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 666681008199 Low molecular weight phosphatase family; Region: LMWPc; cl00105 666681008200 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 666681008201 active site 666681008202 PEP-CTERM motif; Region: VPEP; pfam07589 666681008203 PEP-CTERM motif; Region: VPEP; pfam07589 666681008204 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 666681008205 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 666681008206 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 666681008207 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 666681008208 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 666681008209 Walker A motif; other site 666681008210 ATP binding site [chemical binding]; other site 666681008211 Walker B motif; other site 666681008212 arginine finger; other site 666681008213 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 666681008214 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 666681008215 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 666681008216 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 666681008217 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 666681008218 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 666681008219 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 666681008220 DNA binding residues [nucleotide binding] 666681008221 DNA primase; Validated; Region: dnaG; PRK05667 666681008222 CHC2 zinc finger; Region: zf-CHC2; pfam01807 666681008223 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 666681008224 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 666681008225 active site 666681008226 metal binding site [ion binding]; metal-binding site 666681008227 interdomain interaction site; other site 666681008228 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 666681008229 Yqey-like protein; Region: YqeY; pfam09424 666681008230 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 666681008231 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 666681008232 UGMP family protein; Validated; Region: PRK09604 666681008233 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 666681008234 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 666681008235 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 666681008236 homooctamer interface [polypeptide binding]; other site 666681008237 active site 666681008238 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 666681008239 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 666681008240 active site 666681008241 Int/Topo IB signature motif; other site 666681008242 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 666681008243 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 666681008244 DNA binding site [nucleotide binding] 666681008245 active site 666681008246 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 666681008247 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 666681008248 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 666681008249 RimM N-terminal domain; Region: RimM; pfam01782 666681008250 PRC-barrel domain; Region: PRC; pfam05239 666681008251 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 666681008252 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 666681008253 Ligand Binding Site [chemical binding]; other site 666681008254 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 666681008255 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 666681008256 FeS/SAM binding site; other site 666681008257 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 666681008258 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 666681008259 binding surface 666681008260 TPR motif; other site 666681008261 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 666681008262 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 666681008263 ligand binding site [chemical binding]; other site 666681008264 translocation protein TolB; Provisional; Region: tolB; PRK02889 666681008265 TolB amino-terminal domain; Region: TolB_N; pfam04052 666681008266 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 666681008267 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 666681008268 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 666681008269 TolA protein; Region: tolA_full; TIGR02794 666681008270 TonB C terminal; Region: TonB_2; pfam13103 666681008271 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 666681008272 TolR protein; Region: tolR; TIGR02801 666681008273 TolQ protein; Region: tolQ; TIGR02796 666681008274 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 666681008275 active site 666681008276 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 666681008277 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 666681008278 Walker A motif; other site 666681008279 ATP binding site [chemical binding]; other site 666681008280 Walker B motif; other site 666681008281 arginine finger; other site 666681008282 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 666681008283 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 666681008284 dimerization interface [polypeptide binding]; other site 666681008285 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681008286 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681008287 metal binding site [ion binding]; metal-binding site 666681008288 active site 666681008289 I-site; other site 666681008290 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 666681008291 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 666681008292 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 666681008293 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 666681008294 N-terminal plug; other site 666681008295 ligand-binding site [chemical binding]; other site 666681008296 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 666681008297 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 666681008298 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 666681008299 RuvA N terminal domain; Region: RuvA_N; pfam01330 666681008300 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 666681008301 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 666681008302 active site 666681008303 putative DNA-binding cleft [nucleotide binding]; other site 666681008304 dimer interface [polypeptide binding]; other site 666681008305 hypothetical protein; Validated; Region: PRK00110 666681008306 EamA-like transporter family; Region: EamA; pfam00892 666681008307 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 666681008308 EamA-like transporter family; Region: EamA; pfam00892 666681008309 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_10; cd04623 666681008310 FOG: CBS domain [General function prediction only]; Region: COG0517 666681008311 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 666681008312 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 666681008313 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 666681008314 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 666681008315 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 666681008316 N-terminal plug; other site 666681008317 ligand-binding site [chemical binding]; other site 666681008318 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 666681008319 TolR protein; Region: tolR; TIGR02801 666681008320 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 666681008321 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 666681008322 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 666681008323 Hemin uptake protein hemP; Region: hemP; pfam10636 666681008324 putative protease; Provisional; Region: PRK15452 666681008325 Peptidase family U32; Region: Peptidase_U32; pfam01136 666681008326 Uncharacterized conserved protein [Function unknown]; Region: COG0432 666681008327 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 666681008328 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 666681008329 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 666681008330 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 666681008331 dimer interface [polypeptide binding]; other site 666681008332 putative metal binding site [ion binding]; other site 666681008333 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 666681008334 active site 666681008335 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 666681008336 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 666681008337 dimer interface [polypeptide binding]; other site 666681008338 anticodon binding site; other site 666681008339 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 666681008340 homodimer interface [polypeptide binding]; other site 666681008341 motif 1; other site 666681008342 active site 666681008343 motif 2; other site 666681008344 GAD domain; Region: GAD; pfam02938 666681008345 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 666681008346 motif 3; other site 666681008347 Uncharacterized conserved protein [Function unknown]; Region: COG2928 666681008348 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 666681008349 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 666681008350 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 666681008351 dimer interface [polypeptide binding]; other site 666681008352 ssDNA binding site [nucleotide binding]; other site 666681008353 tetramer (dimer of dimers) interface [polypeptide binding]; other site 666681008354 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 666681008355 Major Facilitator Superfamily; Region: MFS_1; pfam07690 666681008356 putative substrate translocation pore; other site 666681008357 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 666681008358 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 666681008359 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 666681008360 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 666681008361 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 666681008362 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 666681008363 Transglycosylase; Region: Transgly; cl17702 666681008364 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 666681008365 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 666681008366 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 666681008367 shikimate binding site; other site 666681008368 NAD(P) binding site [chemical binding]; other site 666681008369 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 666681008370 active site residue [active] 666681008371 glutamine synthetase; Provisional; Region: glnA; PRK09469 666681008372 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 666681008373 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 666681008374 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 666681008375 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 666681008376 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 666681008377 putative active site [active] 666681008378 heme pocket [chemical binding]; other site 666681008379 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 666681008380 dimer interface [polypeptide binding]; other site 666681008381 phosphorylation site [posttranslational modification] 666681008382 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 666681008383 ATP binding site [chemical binding]; other site 666681008384 Mg2+ binding site [ion binding]; other site 666681008385 G-X-G motif; other site 666681008386 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 666681008387 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 666681008388 active site 666681008389 phosphorylation site [posttranslational modification] 666681008390 intermolecular recognition site; other site 666681008391 dimerization interface [polypeptide binding]; other site 666681008392 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 666681008393 Walker A motif; other site 666681008394 ATP binding site [chemical binding]; other site 666681008395 Walker B motif; other site 666681008396 arginine finger; other site 666681008397 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 666681008398 Replication initiation factor; Region: Rep_trans; pfam02486 666681008399 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 666681008400 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 666681008401 active site 666681008402 catalytic residues [active] 666681008403 DNA binding site [nucleotide binding] 666681008404 Int/Topo IB signature motif; other site 666681008405 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 666681008406 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 666681008407 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 666681008408 Zn2+ binding site [ion binding]; other site 666681008409 Mg2+ binding site [ion binding]; other site 666681008410 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 666681008411 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 666681008412 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 666681008413 active site 666681008414 dimer interface [polypeptide binding]; other site 666681008415 metal binding site [ion binding]; metal-binding site 666681008416 shikimate kinase; Reviewed; Region: aroK; PRK00131 666681008417 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 666681008418 ADP binding site [chemical binding]; other site 666681008419 magnesium binding site [ion binding]; other site 666681008420 putative shikimate binding site; other site 666681008421 AMIN domain; Region: AMIN; pfam11741 666681008422 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 666681008423 Secretin and TonB N terminus short domain; Region: STN; smart00965 666681008424 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 666681008425 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 666681008426 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 666681008427 Pilus assembly protein, PilP; Region: PilP; pfam04351 666681008428 Pilus assembly protein, PilO; Region: PilO; pfam04350 666681008429 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 666681008430 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 666681008431 Cell division protein FtsA; Region: FtsA; cl17206 666681008432 Competence protein A; Region: Competence_A; pfam11104 666681008433 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 666681008434 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 666681008435 Transglycosylase; Region: Transgly; pfam00912 666681008436 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 666681008437 RNA polymerase sigma factor; Provisional; Region: PRK12513 666681008438 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 666681008439 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 666681008440 DNA binding residues [nucleotide binding] 666681008441 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 666681008442 GIY-YIG motif/motif A; other site 666681008443 putative active site [active] 666681008444 putative metal binding site [ion binding]; other site 666681008445 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 666681008446 dimer interface [polypeptide binding]; other site 666681008447 allosteric magnesium binding site [ion binding]; other site 666681008448 active site 666681008449 aspartate-rich active site metal binding site; other site 666681008450 Schiff base residues; other site 666681008451 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 666681008452 active site 666681008453 ribulose/triose binding site [chemical binding]; other site 666681008454 phosphate binding site [ion binding]; other site 666681008455 substrate (anthranilate) binding pocket [chemical binding]; other site 666681008456 product (indole) binding pocket [chemical binding]; other site 666681008457 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 666681008458 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 666681008459 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 666681008460 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 666681008461 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 666681008462 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 666681008463 glutamine binding [chemical binding]; other site 666681008464 catalytic triad [active] 666681008465 anthranilate synthase component I; Provisional; Region: PRK13565 666681008466 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 666681008467 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 666681008468 phosphoglycolate phosphatase; Provisional; Region: PRK13222 666681008469 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 666681008470 motif II; other site 666681008471 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 666681008472 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 666681008473 substrate binding site [chemical binding]; other site 666681008474 hexamer interface [polypeptide binding]; other site 666681008475 metal binding site [ion binding]; metal-binding site 666681008476 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 666681008477 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 666681008478 tRNA; other site 666681008479 putative tRNA binding site [nucleotide binding]; other site 666681008480 putative NADP binding site [chemical binding]; other site 666681008481 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 666681008482 peptide chain release factor 1; Validated; Region: prfA; PRK00591 666681008483 This domain is found in peptide chain release factors; Region: PCRF; smart00937 666681008484 RF-1 domain; Region: RF-1; pfam00472 666681008485 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 666681008486 binding surface 666681008487 TPR motif; other site 666681008488 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 666681008489 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 666681008490 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 666681008491 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 666681008492 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 666681008493 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 666681008494 trimer interface [polypeptide binding]; other site 666681008495 putative metal binding site [ion binding]; other site 666681008496 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 666681008497 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 666681008498 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 666681008499 S-adenosylmethionine binding site [chemical binding]; other site 666681008500 muropeptide transporter; Reviewed; Region: ampG; PRK11902 666681008501 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 666681008502 putative substrate translocation pore; other site 666681008503 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 666681008504 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 666681008505 EamA-like transporter family; Region: EamA; pfam00892 666681008506 EamA-like transporter family; Region: EamA; pfam00892 666681008507 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 666681008508 putative active site [active] 666681008509 putative catalytic site [active] 666681008510 putative DNA binding site [nucleotide binding]; other site 666681008511 putative phosphate binding site [ion binding]; other site 666681008512 metal binding site A [ion binding]; metal-binding site 666681008513 putative AP binding site [nucleotide binding]; other site 666681008514 putative metal binding site B [ion binding]; other site 666681008515 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 666681008516 active site 666681008517 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 666681008518 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 666681008519 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 666681008520 GatB domain; Region: GatB_Yqey; smart00845 666681008521 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 666681008522 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 666681008523 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 666681008524 rod shape-determining protein MreB; Provisional; Region: PRK13927 666681008525 MreB and similar proteins; Region: MreB_like; cd10225 666681008526 nucleotide binding site [chemical binding]; other site 666681008527 Mg binding site [ion binding]; other site 666681008528 putative protofilament interaction site [polypeptide binding]; other site 666681008529 RodZ interaction site [polypeptide binding]; other site 666681008530 rod shape-determining protein MreC; Provisional; Region: PRK13922 666681008531 rod shape-determining protein MreC; Region: MreC; pfam04085 666681008532 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 666681008533 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 666681008534 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 666681008535 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 666681008536 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 666681008537 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 666681008538 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 666681008539 Sporulation related domain; Region: SPOR; pfam05036 666681008540 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 666681008541 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 666681008542 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 666681008543 Protein of unknown function (DUF493); Region: DUF493; pfam04359 666681008544 lipoate-protein ligase B; Provisional; Region: PRK14342 666681008545 lipoyl synthase; Provisional; Region: PRK05481 666681008546 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 666681008547 FeS/SAM binding site; other site 666681008548 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 666681008549 Glutamate-cysteine ligase; Region: GshA; pfam08886 666681008550 glutathione synthetase; Provisional; Region: PRK05246 666681008551 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 666681008552 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 666681008553 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 666681008554 ApbE family; Region: ApbE; pfam02424 666681008555 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 666681008556 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 666681008557 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 666681008558 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 666681008559 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 666681008560 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 666681008561 diaminopimelate decarboxylase; Region: lysA; TIGR01048 666681008562 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 666681008563 active site 666681008564 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 666681008565 substrate binding site [chemical binding]; other site 666681008566 catalytic residues [active] 666681008567 dimer interface [polypeptide binding]; other site 666681008568 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 666681008569 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 666681008570 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 666681008571 putative active site [active] 666681008572 putative substrate binding site [chemical binding]; other site 666681008573 putative cosubstrate binding site; other site 666681008574 catalytic site [active] 666681008575 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 666681008576 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 666681008577 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 666681008578 nudix motif; other site 666681008579 quinolinate synthetase; Provisional; Region: PRK09375 666681008580 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 666681008581 HIT family signature motif; other site 666681008582 catalytic residue [active] 666681008583 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 666681008584 dimer interface [polypeptide binding]; other site 666681008585 [2Fe-2S] cluster binding site [ion binding]; other site 666681008586 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 666681008587 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 666681008588 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 666681008589 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 666681008590 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 666681008591 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 666681008592 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 666681008593 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 666681008594 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 666681008595 substrate binding pocket [chemical binding]; other site 666681008596 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 666681008597 B12 binding site [chemical binding]; other site 666681008598 cobalt ligand [ion binding]; other site 666681008599 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 666681008600 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 666681008601 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; cd00338 666681008602 catalytic residues [active] 666681008603 catalytic nucleophile [active] 666681008604 Recombinase; Region: Recombinase; pfam07508 666681008605 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 666681008606 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 666681008607 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 666681008608 Walker A motif; other site 666681008609 ATP binding site [chemical binding]; other site 666681008610 Walker B motif; other site 666681008611 arginine finger; other site 666681008612 Membrane fusogenic activity; Region: BMFP; pfam04380 666681008613 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 666681008614 Nitrogen regulatory protein P-II; Region: P-II; smart00938 666681008615 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 666681008616 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 666681008617 dimerization interface [polypeptide binding]; other site 666681008618 putative DNA binding site [nucleotide binding]; other site 666681008619 putative Zn2+ binding site [ion binding]; other site 666681008620 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 666681008621 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 666681008622 putative acyl-acceptor binding pocket; other site 666681008623 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 666681008624 acyl-activating enzyme (AAE) consensus motif; other site 666681008625 AMP binding site [chemical binding]; other site 666681008626 active site 666681008627 CoA binding site [chemical binding]; other site 666681008628 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 666681008629 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 666681008630 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 666681008631 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 666681008632 H+ Antiporter protein; Region: 2A0121; TIGR00900 666681008633 PqqA family; Region: PqqA; cl15372 666681008634 MltA specific insert domain; Region: MltA; smart00925 666681008635 3D domain; Region: 3D; pfam06725 666681008636 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 666681008637 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 666681008638 ThiS interaction site; other site 666681008639 putative active site [active] 666681008640 tetramer interface [polypeptide binding]; other site 666681008641 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 666681008642 thiS-thiF/thiG interaction site; other site 666681008643 Alternative oxidase, ferritin-like diiron-binding domain; Region: AOX; cd01053 666681008644 diiron binding motif [ion binding]; other site 666681008645 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 666681008646 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 666681008647 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 666681008648 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 666681008649 putative dimerization interface [polypeptide binding]; other site 666681008650 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 666681008651 30S subunit binding site; other site 666681008652 heat shock protein HtpX; Provisional; Region: PRK05457 666681008653 hypothetical protein; Provisional; Region: PRK05208 666681008654 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 666681008655 Domain of unknown function DUF20; Region: UPF0118; pfam01594 666681008656 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 666681008657 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 666681008658 Uncharacterized conserved protein [Function unknown]; Region: COG3410 666681008659 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 666681008660 non-specific DNA binding site [nucleotide binding]; other site 666681008661 salt bridge; other site 666681008662 sequence-specific DNA binding site [nucleotide binding]; other site 666681008663 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 666681008664 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 666681008665 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 666681008666 lysozyme inhibitor; Provisional; Region: PRK11372 666681008667 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 666681008668 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 666681008669 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 666681008670 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 666681008671 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 666681008672 PAS fold; Region: PAS_3; pfam08447 666681008673 putative active site [active] 666681008674 heme pocket [chemical binding]; other site 666681008675 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 666681008676 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 666681008677 metal binding site [ion binding]; metal-binding site 666681008678 active site 666681008679 I-site; other site 666681008680 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 666681008681 [4Fe-4S] binding site [ion binding]; other site 666681008682 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 666681008683 molybdopterin cofactor binding site; other site 666681008684 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 666681008685 molybdopterin cofactor binding site; other site 666681008686 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 666681008687 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 666681008688 [2Fe-2S] cluster binding site [ion binding]; other site 666681008689 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 666681008690 active site 666681008691 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 666681008692 Catalytic domain of Protein Kinases; Region: PKc; cd00180 666681008693 active site 666681008694 ATP binding site [chemical binding]; other site 666681008695 substrate binding site [chemical binding]; other site 666681008696 activation loop (A-loop); other site 666681008697 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 666681008698 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 666681008699 putative substrate translocation pore; other site 666681008700 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 666681008701 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 666681008702 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 666681008703 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 666681008704 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 666681008705 outer membrane porin, OprD family; Region: OprD; pfam03573 666681008706 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 666681008707 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 666681008708 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 666681008709 Walker A/P-loop; other site 666681008710 ATP binding site [chemical binding]; other site 666681008711 Q-loop/lid; other site 666681008712 ABC transporter signature motif; other site 666681008713 Walker B; other site 666681008714 D-loop; other site 666681008715 H-loop/switch region; other site 666681008716 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 666681008717 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 666681008718 dimer interface [polypeptide binding]; other site 666681008719 conserved gate region; other site 666681008720 putative PBP binding loops; other site 666681008721 ABC-ATPase subunit interface; other site 666681008722 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 666681008723 NMT1-like family; Region: NMT1_2; pfam13379 666681008724 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 666681008725 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; cl17736 666681008726 active site 666681008727 phosphorylation site [posttranslational modification] 666681008728 intermolecular recognition site; other site 666681008729 dimerization interface [polypeptide binding]; other site 666681008730 ANTAR domain; Region: ANTAR; pfam03861 666681008731 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 666681008732 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 666681008733 HflX GTPase family; Region: HflX; cd01878 666681008734 G1 box; other site 666681008735 GTP/Mg2+ binding site [chemical binding]; other site 666681008736 Switch I region; other site 666681008737 G2 box; other site 666681008738 G3 box; other site 666681008739 Switch II region; other site 666681008740 G4 box; other site 666681008741 G5 box; other site 666681008742 NnrS protein; Region: NnrS; pfam05940 666681008743 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 666681008744 endonuclease III; Region: ENDO3c; smart00478 666681008745 minor groove reading motif; other site 666681008746 helix-hairpin-helix signature motif; other site 666681008747 substrate binding pocket [chemical binding]; other site 666681008748 active site 666681008749 enterobactin exporter EntS; Provisional; Region: PRK10489 666681008750 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 666681008751 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 666681008752 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 666681008753 Porcine testicular carbonyl reductase (PTCR)-like, classical (c) SDRs; Region: carb_red_PTCR-like_SDR_c; cd05324 666681008754 NADP binding site [chemical binding]; other site 666681008755 substrate binding site [chemical binding]; other site 666681008756 active site 666681008757 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 666681008758 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 666681008759 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 666681008760 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 666681008761 amino acid permease (GABA permease); Region: 2A0304; TIGR00907 666681008762 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 666681008763 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 666681008764 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 666681008765 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 666681008766 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 666681008767 Walker A motif; other site 666681008768 ATP binding site [chemical binding]; other site 666681008769 Walker B motif; other site 666681008770 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 666681008771 EamA-like transporter family; Region: EamA; cl17759 666681008772 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 666681008773 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 666681008774 Walker A/P-loop; other site 666681008775 ATP binding site [chemical binding]; other site 666681008776 Q-loop/lid; other site 666681008777 ABC transporter signature motif; other site 666681008778 Walker B; other site 666681008779 D-loop; other site 666681008780 H-loop/switch region; other site 666681008781 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 666681008782 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 666681008783 putative ligand binding site [chemical binding]; other site 666681008784 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 666681008785 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 666681008786 TM-ABC transporter signature motif; other site 666681008787 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 666681008788 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 666681008789 TM-ABC transporter signature motif; other site 666681008790 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 666681008791 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 666681008792 Walker A/P-loop; other site 666681008793 ATP binding site [chemical binding]; other site 666681008794 Q-loop/lid; other site 666681008795 ABC transporter signature motif; other site 666681008796 Walker B; other site 666681008797 D-loop; other site 666681008798 H-loop/switch region; other site 666681008799 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 666681008800 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 666681008801 CoA binding site [chemical binding]; other site 666681008802 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 666681008803 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 666681008804 active site 666681008805 dimer interface [polypeptide binding]; other site 666681008806 non-prolyl cis peptide bond; other site 666681008807 insertion regions; other site 666681008808 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 666681008809 FMN reductase, MsuE subfamily; Region: FMN_reduc_MsuE; TIGR03566 666681008810 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 666681008811 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 666681008812 Flavin binding site [chemical binding]; other site 666681008813 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 666681008814 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 666681008815 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 666681008816 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 666681008817 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 666681008818 active site 666681008819 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 666681008820 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 666681008821 active site 666681008822 dimer interface [polypeptide binding]; other site 666681008823 non-prolyl cis peptide bond; other site 666681008824 insertion regions; other site 666681008825 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 666681008826 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 666681008827 Flavin binding site [chemical binding]; other site 666681008828 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 666681008829 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 666681008830 Walker A motif; other site 666681008831 ATP binding site [chemical binding]; other site 666681008832 Walker B motif; other site 666681008833 arginine finger; other site 666681008834 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 666681008835 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 666681008836 dimerization interface [polypeptide binding]; other site 666681008837 active site 666681008838 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 666681008839 TSCPD domain; Region: TSCPD; pfam12637 666681008840 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 666681008841 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 666681008842 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 666681008843 active site 666681008844 dimer interface [polypeptide binding]; other site 666681008845 effector binding site; other site 666681008846 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 666681008847 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 666681008848 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 666681008849 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 666681008850 Isochorismatase family; Region: Isochorismatase; pfam00857 666681008851 catalytic triad [active] 666681008852 dimer interface [polypeptide binding]; other site 666681008853 conserved cis-peptide bond; other site 666681008854 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 666681008855 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 666681008856 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 666681008857 S-adenosylmethionine binding site [chemical binding]; other site 666681008858 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 666681008859 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 666681008860 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 666681008861 HlyD family secretion protein; Region: HlyD_3; pfam13437 666681008862 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 666681008863 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 666681008864 WHG domain; Region: WHG; pfam13305 666681008865 Predicted membrane protein [Function unknown]; Region: COG2510 666681008866 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 666681008867 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 666681008868 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 666681008869 Domain of unknown function (DUF368); Region: DUF368; cl00893 666681008870 putative metal dependent hydrolase; Provisional; Region: PRK11598 666681008871 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 666681008872 Sulfatase; Region: Sulfatase; pfam00884 666681008873 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 666681008874 active site 666681008875 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 666681008876 ThiC-associated domain; Region: ThiC-associated; pfam13667 666681008877 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 666681008878 putative transporter; Provisional; Region: PRK11660 666681008879 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 666681008880 Sulfate transporter family; Region: Sulfate_transp; pfam00916 666681008881 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 666681008882 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 666681008883 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 666681008884 RNA binding surface [nucleotide binding]; other site 666681008885 Pseudouridine synthase, a subgroup of the RsuA family; Region: PSSA_1; cd02555 666681008886 active site 666681008887 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 666681008888 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 666681008889 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 666681008890 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 666681008891 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 666681008892 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 666681008893 minor groove reading motif; other site 666681008894 helix-hairpin-helix signature motif; other site 666681008895 substrate binding pocket [chemical binding]; other site 666681008896 active site 666681008897 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 666681008898 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 666681008899 DNA binding and oxoG recognition site [nucleotide binding] 666681008900 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 666681008901 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 666681008902 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 666681008903 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 666681008904 DNA binding residues [nucleotide binding] 666681008905 dimer interface [polypeptide binding]; other site 666681008906 putative metal binding site [ion binding]; other site 666681008907 YceI-like domain; Region: YceI; smart00867 666681008908 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 666681008909 Predicted membrane protein [Function unknown]; Region: COG5393 666681008910 YqjK-like protein; Region: YqjK; pfam13997 666681008911 Formaldehyde-activating enzyme (Fae); Region: Fae; pfam08714 666681008912 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 666681008913 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 666681008914 Coenzyme A binding pocket [chemical binding]; other site 666681008915 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 666681008916 DoxX; Region: DoxX; pfam07681 666681008917 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 666681008918 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 666681008919 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 666681008920 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 666681008921 substrate binding site [chemical binding]; other site 666681008922 active site 666681008923 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 666681008924 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 666681008925 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 666681008926 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 666681008927 active site 666681008928 dimer interface [polypeptide binding]; other site 666681008929 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 666681008930 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 666681008931 active site 666681008932 FMN binding site [chemical binding]; other site 666681008933 substrate binding site [chemical binding]; other site 666681008934 3Fe-4S cluster binding site [ion binding]; other site 666681008935 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 666681008936 domain interface; other site 666681008937 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 666681008938 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 666681008939 inhibitor-cofactor binding pocket; inhibition site 666681008940 pyridoxal 5'-phosphate binding site [chemical binding]; other site 666681008941 catalytic residue [active] 666681008942 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 666681008943 thiamine phosphate binding site [chemical binding]; other site 666681008944 active site 666681008945 pyrophosphate binding site [ion binding]; other site 666681008946 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 666681008947 substrate binding site [chemical binding]; other site 666681008948 dimer interface [polypeptide binding]; other site 666681008949 ATP binding site [chemical binding]; other site 666681008950 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 666681008951 Transcriptional regulator [Transcription]; Region: LysR; COG0583 666681008952 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 666681008953 putative effector binding pocket; other site 666681008954 putative dimerization interface [polypeptide binding]; other site 666681008955 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 666681008956 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 666681008957 NAD(P) binding site [chemical binding]; other site 666681008958 active site 666681008959 primosome assembly protein PriA; Validated; Region: PRK05580 666681008960 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 666681008961 ATP binding site [chemical binding]; other site 666681008962 putative Mg++ binding site [ion binding]; other site 666681008963 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 666681008964 helicase superfamily c-terminal domain; Region: HELICc; smart00490 666681008965 ATP-binding site [chemical binding]; other site 666681008966 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 666681008967 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 666681008968 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 666681008969 active site 666681008970 HIGH motif; other site 666681008971 nucleotide binding site [chemical binding]; other site 666681008972 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 666681008973 KMSK motif region; other site 666681008974 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 666681008975 tRNA binding surface [nucleotide binding]; other site 666681008976 anticodon binding site; other site 666681008977 Sporulation related domain; Region: SPOR; pfam05036 666681008978 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 666681008979 catalytic residues [active] 666681008980 hinge region; other site 666681008981 alpha helical domain; other site 666681008982 short chain dehydrogenase; Provisional; Region: PRK07024 666681008983 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 666681008984 NAD(P) binding site [chemical binding]; other site 666681008985 active site 666681008986 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 666681008987 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 666681008988 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 666681008989 ABC transporter; Region: ABC_tran_2; pfam12848 666681008990 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 666681008991 YaeQ protein; Region: YaeQ; pfam07152 666681008992 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 666681008993 cyclase homology domain; Region: CHD; cd07302 666681008994 nucleotidyl binding site; other site 666681008995 metal binding site [ion binding]; metal-binding site 666681008996 dimer interface [polypeptide binding]; other site 666681008997 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 666681008998 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 666681008999 glutaminase active site [active] 666681009000 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 666681009001 dimer interface [polypeptide binding]; other site 666681009002 active site 666681009003 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 666681009004 dimer interface [polypeptide binding]; other site 666681009005 active site 666681009006 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 666681009007 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 666681009008 Substrate binding site; other site 666681009009 Mg++ binding site; other site 666681009010 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 666681009011 active site 666681009012 substrate binding site [chemical binding]; other site 666681009013 CoA binding site [chemical binding]; other site 666681009014 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 666681009015 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 666681009016 gamma subunit interface [polypeptide binding]; other site 666681009017 epsilon subunit interface [polypeptide binding]; other site 666681009018 LBP interface [polypeptide binding]; other site 666681009019 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 666681009020 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 666681009021 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 666681009022 alpha subunit interaction interface [polypeptide binding]; other site 666681009023 Walker A motif; other site 666681009024 ATP binding site [chemical binding]; other site 666681009025 Walker B motif; other site 666681009026 inhibitor binding site; inhibition site 666681009027 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 666681009028 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 666681009029 core domain interface [polypeptide binding]; other site 666681009030 delta subunit interface [polypeptide binding]; other site 666681009031 epsilon subunit interface [polypeptide binding]; other site 666681009032 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 666681009033 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 666681009034 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 666681009035 beta subunit interaction interface [polypeptide binding]; other site 666681009036 Walker A motif; other site 666681009037 ATP binding site [chemical binding]; other site 666681009038 Walker B motif; other site 666681009039 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 666681009040 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 666681009041 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 666681009042 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 666681009043 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 666681009044 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 666681009045 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 666681009046 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 666681009047 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 666681009048 ParB-like nuclease domain; Region: ParB; smart00470 666681009049 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 666681009050 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 666681009051 P-loop; other site 666681009052 Magnesium ion binding site [ion binding]; other site 666681009053 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 666681009054 Magnesium ion binding site [ion binding]; other site 666681009055 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 666681009056 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 666681009057 S-adenosylmethionine binding site [chemical binding]; other site 666681009058 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 666681009059 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 666681009060 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 666681009061 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 666681009062 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 666681009063 Uncharacterized conserved protein [Function unknown]; Region: COG3422 666681009064 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 666681009065 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 666681009066 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 666681009067 trmE is a tRNA modification GTPase; Region: trmE; cd04164 666681009068 G1 box; other site 666681009069 GTP/Mg2+ binding site [chemical binding]; other site 666681009070 Switch I region; other site 666681009071 G2 box; other site 666681009072 Switch II region; other site 666681009073 G3 box; other site 666681009074 G4 box; other site 666681009075 G5 box; other site 666681009076 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 666681009077 membrane protein insertase; Provisional; Region: PRK01318 666681009078 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 666681009079 Haemolytic domain; Region: Haemolytic; pfam01809 666681009080 ribonuclease P; Reviewed; Region: rnpA; PRK04390 666681009081 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399