-- dump date 20140620_033015 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1150469000001 contig_242 1150469000002 contig_244 1150469000003 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 1150469000004 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 1150469000005 contig_247 1150469000006 contig_250 1150469000007 contig_103 1150469000008 contig_252 1150469000009 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1150469000010 Sel1-like repeats; Region: SEL1; smart00671 1150469000011 Sel1-like repeats; Region: SEL1; smart00671 1150469000012 Sel1-like repeats; Region: SEL1; smart00671 1150469000013 Sel1-like repeats; Region: SEL1; smart00671 1150469000014 contig_261 1150469000015 contig_73 1150469000016 contig_246 1150469000017 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1150469000018 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 1150469000019 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1150469000020 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1150469000021 Probable Catalytic site; other site 1150469000022 contig_264 1150469000023 Rhamnan synthesis protein F; Region: RgpF; pfam05045 1150469000024 contig_255 1150469000025 contig_5 1150469000026 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 1150469000027 Ca2+ binding site [ion binding]; other site 1150469000028 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 1150469000029 EF-hand domain pair; Region: EF_hand_5; pfam13499 1150469000030 Ca2+ binding site [ion binding]; other site 1150469000031 contig_204 1150469000032 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1150469000033 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 1150469000034 active site 1150469000035 contig_269 1150469000036 contig_270 1150469000037 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; cd02259 1150469000038 putative active site [active] 1150469000039 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1150469000040 contig_249 1150469000041 contig_92 1150469000042 contig_296 1150469000043 Domain of unknown function (DUF4324); Region: DUF4324; pfam14212 1150469000044 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 1150469000045 active site 1150469000046 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 1150469000047 FHIPEP family; Region: FHIPEP; pfam00771 1150469000048 contig_251 1150469000049 contig_291 1150469000050 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1150469000051 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1150469000052 NADP binding site [chemical binding]; other site 1150469000053 active site 1150469000054 putative substrate binding site [chemical binding]; other site 1150469000055 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1150469000056 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1150469000057 NAD binding site [chemical binding]; other site 1150469000058 substrate binding site [chemical binding]; other site 1150469000059 homodimer interface [polypeptide binding]; other site 1150469000060 active site 1150469000061 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1150469000062 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 1150469000063 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1150469000064 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1150469000065 Probable Catalytic site; other site 1150469000066 metal-binding site 1150469000067 contig_307 1150469000068 Domain of unknown function (DUF4323); Region: DUF4323; pfam14211 1150469000069 contig_288 1150469000071 contig_305 1150469000072 contig_309 1150469000073 contig_308 1150469000074 Domain of unknown function (DUF4323); Region: DUF4323; pfam14211 1150469000075 contig_313 1150469000076 contig_316 1150469000077 chaperone protein DnaJ; Provisional; Region: PRK14298 1150469000078 contig_274 1150469000079 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1150469000080 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 1150469000081 inhibitor-cofactor binding pocket; inhibition site 1150469000082 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1150469000083 catalytic residue [active] 1150469000084 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1150469000085 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1150469000086 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1150469000087 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 1150469000088 active site 1150469000089 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1150469000090 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1150469000091 active site 1150469000092 contig_265 1150469000093 contig_345 1150469000094 contig_317 1150469000095 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 1150469000096 contig_310 1150469000097 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 1150469000098 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1150469000099 active site 1150469000100 Domain of unknown function (DUF4324); Region: DUF4324; pfam14212 1150469000101 contig_327 1150469000102 contig_2091 1150469000103 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 1150469000104 PAS domain; Region: PAS_9; pfam13426 1150469000105 putative active site [active] 1150469000106 heme pocket [chemical binding]; other site 1150469000107 contig_13 1150469000108 CHASE2 domain; Region: CHASE2; pfam05226 1150469000109 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1150469000110 cyclase homology domain; Region: CHD; cd07302 1150469000111 nucleotidyl binding site; other site 1150469000112 metal binding site [ion binding]; metal-binding site 1150469000113 dimer interface [polypeptide binding]; other site 1150469000114 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1150469000115 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1150469000116 flagellar motor protein MotS; Reviewed; Region: PRK06925 1150469000117 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1150469000118 ligand binding site [chemical binding]; other site 1150469000119 contig_312 1150469000120 contig_28 1150469000121 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1150469000122 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 1150469000123 active site 1150469000124 phosphorylation site [posttranslational modification] 1150469000125 intermolecular recognition site; other site 1150469000126 dimerization interface [polypeptide binding]; other site 1150469000127 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1150469000128 capsid protein IX,hexon associated protein IX; Provisional; Region: IX; PHA03385 1150469000129 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1150469000130 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 1150469000131 protein binding site [polypeptide binding]; other site 1150469000132 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1150469000133 Catalytic dyad [active] 1150469000134 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 1150469000135 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 1150469000136 dimer interface [polypeptide binding]; other site 1150469000137 motif 1; other site 1150469000138 active site 1150469000139 motif 2; other site 1150469000140 motif 3; other site 1150469000141 contig_29 1150469000142 elongation factor G; Reviewed; Region: PRK00007 1150469000143 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1150469000144 G1 box; other site 1150469000145 putative GEF interaction site [polypeptide binding]; other site 1150469000146 GTP/Mg2+ binding site [chemical binding]; other site 1150469000147 Switch I region; other site 1150469000148 G2 box; other site 1150469000149 G3 box; other site 1150469000150 Switch II region; other site 1150469000151 G4 box; other site 1150469000152 G5 box; other site 1150469000153 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 1150469000154 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 1150469000155 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 1150469000156 30S ribosomal protein S7; Validated; Region: PRK05302 1150469000157 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 1150469000158 S17 interaction site [polypeptide binding]; other site 1150469000159 S8 interaction site; other site 1150469000160 16S rRNA interaction site [nucleotide binding]; other site 1150469000161 streptomycin interaction site [chemical binding]; other site 1150469000162 23S rRNA interaction site [nucleotide binding]; other site 1150469000163 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1150469000164 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1150469000165 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1150469000166 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1150469000167 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1150469000168 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1150469000169 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1150469000170 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1150469000171 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1150469000172 DNA binding site [nucleotide binding] 1150469000173 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1150469000174 contig_31 1150469000175 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 1150469000176 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1150469000177 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 1150469000178 RPB3 interaction site [polypeptide binding]; other site 1150469000179 RPB1 interaction site [polypeptide binding]; other site 1150469000180 RPB11 interaction site [polypeptide binding]; other site 1150469000181 RPB10 interaction site [polypeptide binding]; other site 1150469000182 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 1150469000183 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1150469000184 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1150469000185 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 1150469000186 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 1150469000187 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 1150469000188 core dimer interface [polypeptide binding]; other site 1150469000189 peripheral dimer interface [polypeptide binding]; other site 1150469000190 L10 interface [polypeptide binding]; other site 1150469000191 L11 interface [polypeptide binding]; other site 1150469000192 putative EF-Tu interaction site [polypeptide binding]; other site 1150469000193 putative EF-G interaction site [polypeptide binding]; other site 1150469000194 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 1150469000195 23S rRNA interface [nucleotide binding]; other site 1150469000196 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1150469000197 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 1150469000198 mRNA/rRNA interface [nucleotide binding]; other site 1150469000199 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1150469000200 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 1150469000201 23S rRNA interface [nucleotide binding]; other site 1150469000202 L7/L12 interface [polypeptide binding]; other site 1150469000203 putative thiostrepton binding site; other site 1150469000204 L25 interface [polypeptide binding]; other site 1150469000205 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1150469000206 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1150469000207 putative homodimer interface [polypeptide binding]; other site 1150469000208 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1150469000209 heterodimer interface [polypeptide binding]; other site 1150469000210 homodimer interface [polypeptide binding]; other site 1150469000211 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 1150469000212 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 1150469000213 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 1150469000214 Antibiotic Binding Site [chemical binding]; other site 1150469000215 contig_294 1150469000216 contig_9 1150469000217 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 1150469000218 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1150469000219 putative active site [active] 1150469000220 metal binding site [ion binding]; metal-binding site 1150469000221 homodimer binding site [polypeptide binding]; other site 1150469000222 2-vinyl bacteriochlorophyllide hydratase (BCHF); Region: BCHF; pfam07284 1150469000223 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 1150469000224 light-independent protochlorophyllide reductase subunit N; Provisional; Region: PRK02842 1150469000225 light-independent protochlorophyllide reductase subunit B; Provisional; Region: PRK02910 1150469000226 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 1150469000227 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 1150469000228 magnesium chelatase subunit H; Provisional; Region: bchH; PRK13405 1150469000229 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1150469000230 protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional; Region: chlL; PRK13185 1150469000231 This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are...; Region: Bchl_like; cd02032 1150469000232 P-loop; other site 1150469000233 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 1150469000234 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 1150469000235 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 1150469000236 S-adenosylmethionine binding site [chemical binding]; other site 1150469000237 Magnesium-protoporphyrin IX methyltransferase C-terminus; Region: Mg-por_mtran_C; pfam07109 1150469000238 PUCC protein; Region: PUCC; pfam03209 1150469000239 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl17581 1150469000240 photosynthetic reaction center, subunit H, bacterial; Region: puhA; TIGR01150 1150469000241 subunit C interaction residues; other site 1150469000242 subunit M interaction residues [polypeptide binding]; other site 1150469000243 subunit L interaction residues [polypeptide binding]; other site 1150469000244 putative proton transfer pathway, P1; other site 1150469000245 putative proton transfer pathway, P2; other site 1150469000246 Bacterial PH domain; Region: DUF304; pfam03703 1150469000247 putative photosynthetic complex assembly protein; Region: photo_alph_chp1; TIGR03054 1150469000248 Protein of unknown function (DUF3623); Region: DUF3623; pfam12291 1150469000249 V4R domain; Region: V4R; cl15268 1150469000250 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1150469000251 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 1150469000252 active site 1150469000253 hypothetical protein; Reviewed; Region: PRK00024 1150469000254 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1150469000255 MPN+ (JAMM) motif; other site 1150469000256 Zinc-binding site [ion binding]; other site 1150469000257 Predicted membrane protein [Function unknown]; Region: COG3671 1150469000258 contig_35 1150469000259 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1150469000260 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1150469000261 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1150469000262 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1150469000263 GatB domain; Region: GatB_Yqey; smart00845 1150469000264 Cache domain; Region: Cache_1; pfam02743 1150469000265 PAS domain S-box; Region: sensory_box; TIGR00229 1150469000266 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 1150469000267 putative active site [active] 1150469000268 heme pocket [chemical binding]; other site 1150469000269 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1150469000270 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 1150469000271 dimer interface [polypeptide binding]; other site 1150469000272 phosphorylation site [posttranslational modification] 1150469000273 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 1150469000274 ATP binding site [chemical binding]; other site 1150469000275 Mg2+ binding site [ion binding]; other site 1150469000276 G-X-G motif; other site 1150469000277 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1150469000278 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 1150469000279 active site 1150469000280 phosphorylation site [posttranslational modification] 1150469000281 intermolecular recognition site; other site 1150469000282 dimerization interface [polypeptide binding]; other site 1150469000283 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 1150469000284 putative binding surface; other site 1150469000285 active site 1150469000286 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469000287 dimer interface [polypeptide binding]; other site 1150469000288 putative CheW interface [polypeptide binding]; other site 1150469000289 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1150469000290 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 1150469000291 active site 1150469000292 phosphorylation site [posttranslational modification] 1150469000293 intermolecular recognition site; other site 1150469000294 dimerization interface [polypeptide binding]; other site 1150469000295 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1150469000296 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1150469000297 Walker A/P-loop; other site 1150469000298 ATP binding site [chemical binding]; other site 1150469000299 Q-loop/lid; other site 1150469000300 ABC transporter signature motif; other site 1150469000301 Walker B; other site 1150469000302 D-loop; other site 1150469000303 H-loop/switch region; other site 1150469000304 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1150469000305 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1150469000306 FtsX-like permease family; Region: FtsX; pfam02687 1150469000307 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 1150469000308 DJ-1 family protein; Region: not_thiJ; TIGR01383 1150469000309 conserved cys residue [active] 1150469000310 prolyl-tRNA synthetase; Provisional; Region: PRK12325 1150469000311 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 1150469000312 dimer interface [polypeptide binding]; other site 1150469000313 motif 1; other site 1150469000314 active site 1150469000315 motif 2; other site 1150469000316 motif 3; other site 1150469000317 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 1150469000318 anticodon binding site; other site 1150469000319 contig_24 1150469000320 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1150469000321 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1150469000322 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1150469000323 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 1150469000324 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1150469000325 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1150469000326 catalytic residue [active] 1150469000327 geranylgeranyl reductase; Region: BchP-ChlP; TIGR02023 1150469000328 PUCC protein; Region: PUCC; pfam03209 1150469000329 bacteriochlorophyll/chlorophyll a synthase; Reviewed; Region: PRK07566 1150469000330 UbiA prenyltransferase family; Region: UbiA; pfam01040 1150469000331 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 1150469000332 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1150469000333 NAD binding site [chemical binding]; other site 1150469000334 homotetramer interface [polypeptide binding]; other site 1150469000335 homodimer interface [polypeptide binding]; other site 1150469000336 substrate binding site [chemical binding]; other site 1150469000337 active site 1150469000338 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1150469000339 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1150469000340 Tetramer interface [polypeptide binding]; other site 1150469000341 active site 1150469000342 FMN-binding site [chemical binding]; other site 1150469000343 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 1150469000344 tandem repeat interface [polypeptide binding]; other site 1150469000345 oligomer interface [polypeptide binding]; other site 1150469000346 active site residues [active] 1150469000347 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1150469000348 oligomer interface [polypeptide binding]; other site 1150469000349 tandem repeat interface [polypeptide binding]; other site 1150469000350 active site residues [active] 1150469000351 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469000352 metal binding site [ion binding]; metal-binding site 1150469000353 active site 1150469000354 I-site; other site 1150469000355 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 1150469000356 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 1150469000357 sequence-specific DNA binding site [nucleotide binding]; other site 1150469000358 salt bridge; other site 1150469000359 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1150469000360 Part of AAA domain; Region: AAA_19; pfam13245 1150469000361 Family description; Region: UvrD_C_2; pfam13538 1150469000362 ethanolamine permease; Region: 2A0305; TIGR00908 1150469000363 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 1150469000364 contig_6 1150469000365 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 1150469000366 MFS_1 like family; Region: MFS_1_like; pfam12832 1150469000367 acyl-CoA synthetase; Validated; Region: PRK08162 1150469000368 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 1150469000369 acyl-activating enzyme (AAE) consensus motif; other site 1150469000370 putative active site [active] 1150469000371 AMP binding site [chemical binding]; other site 1150469000372 putative CoA binding site [chemical binding]; other site 1150469000373 PAS domain; Region: PAS_9; pfam13426 1150469000374 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 1150469000375 Peptidase family M23; Region: Peptidase_M23; pfam01551 1150469000376 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1150469000377 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 1150469000378 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 1150469000379 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1150469000380 Response regulator receiver domain; Region: Response_reg; pfam00072 1150469000381 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 1150469000382 active site 1150469000383 phosphorylation site [posttranslational modification] 1150469000384 intermolecular recognition site; other site 1150469000385 dimerization interface [polypeptide binding]; other site 1150469000386 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469000387 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469000388 metal binding site [ion binding]; metal-binding site 1150469000389 active site 1150469000390 I-site; other site 1150469000391 PII uridylyl-transferase; Provisional; Region: PRK05092 1150469000392 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1150469000393 metal binding triad; other site 1150469000394 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1150469000395 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1150469000396 Zn2+ binding site [ion binding]; other site 1150469000397 Mg2+ binding site [ion binding]; other site 1150469000398 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 1150469000399 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 1150469000400 Domain of unknown function (DUF955); Region: DUF955; cl01076 1150469000401 HAMP domain; Region: HAMP; pfam00672 1150469000402 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1150469000403 dimerization interface [polypeptide binding]; other site 1150469000404 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 1150469000405 dimer interface [polypeptide binding]; other site 1150469000406 phosphorylation site [posttranslational modification] 1150469000407 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 1150469000408 ATP binding site [chemical binding]; other site 1150469000409 Mg2+ binding site [ion binding]; other site 1150469000410 G-X-G motif; other site 1150469000411 contig_53 1150469000412 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 1150469000413 non-specific DNA binding site [nucleotide binding]; other site 1150469000414 sequence-specific DNA binding site [nucleotide binding]; other site 1150469000415 salt bridge; other site 1150469000416 contig_7 1150469000417 VRR-NUC domain; Region: VRR_NUC; pfam08774 1150469000418 MT-A70; Region: MT-A70; cl01947 1150469000419 contig_18 1150469000420 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 1150469000421 S-adenosylmethionine binding site [chemical binding]; other site 1150469000422 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 1150469000423 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 1150469000424 B12 binding site [chemical binding]; other site 1150469000425 cobalt ligand [ion binding]; other site 1150469000426 contig_8 1150469000427 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 1150469000428 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 1150469000429 putative FMN binding site [chemical binding]; other site 1150469000430 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 1150469000431 homodimer interface [polypeptide binding]; other site 1150469000432 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1150469000433 active site pocket [active] 1150469000434 glycogen synthase; Provisional; Region: glgA; PRK00654 1150469000435 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 1150469000436 ADP-binding pocket [chemical binding]; other site 1150469000437 homodimer interface [polypeptide binding]; other site 1150469000438 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 1150469000439 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1150469000440 ligand binding site; other site 1150469000441 oligomer interface; other site 1150469000442 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 1150469000443 dimer interface [polypeptide binding]; other site 1150469000444 N-terminal domain interface [polypeptide binding]; other site 1150469000445 sulfate 1 binding site; other site 1150469000446 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1150469000447 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1150469000448 Walker A/P-loop; other site 1150469000449 ATP binding site [chemical binding]; other site 1150469000450 Q-loop/lid; other site 1150469000451 ABC transporter signature motif; other site 1150469000452 Walker B; other site 1150469000453 D-loop; other site 1150469000454 H-loop/switch region; other site 1150469000455 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1150469000456 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 1150469000457 substrate binding pocket [chemical binding]; other site 1150469000458 membrane-bound complex binding site; other site 1150469000459 hinge residues; other site 1150469000460 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 1150469000461 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 1150469000462 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 1150469000463 catalytic triad [active] 1150469000464 dimer interface [polypeptide binding]; other site 1150469000465 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 1150469000466 active site 1150469000467 phosphorylation site [posttranslational modification] 1150469000468 intermolecular recognition site; other site 1150469000469 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 1150469000470 dimer interface [polypeptide binding]; other site 1150469000471 phosphorylation site [posttranslational modification] 1150469000472 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 1150469000473 ATP binding site [chemical binding]; other site 1150469000474 Mg2+ binding site [ion binding]; other site 1150469000475 G-X-G motif; other site 1150469000476 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 1150469000477 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1150469000478 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1150469000479 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1150469000480 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1150469000481 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1150469000482 putative active site [active] 1150469000483 putative substrate binding site [chemical binding]; other site 1150469000484 putative cosubstrate binding site; other site 1150469000485 catalytic site [active] 1150469000486 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 1150469000487 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1150469000488 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1150469000489 homodimer interface [polypeptide binding]; other site 1150469000490 NADP binding site [chemical binding]; other site 1150469000491 substrate binding site [chemical binding]; other site 1150469000492 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1150469000493 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 1150469000494 ligand binding site [chemical binding]; other site 1150469000495 flexible hinge region; other site 1150469000496 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 1150469000497 putative switch regulator; other site 1150469000498 non-specific DNA interactions [nucleotide binding]; other site 1150469000499 DNA binding site [nucleotide binding] 1150469000500 sequence specific DNA binding site [nucleotide binding]; other site 1150469000501 putative cAMP binding site [chemical binding]; other site 1150469000502 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 1150469000503 contig_50 1150469000504 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1150469000505 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1150469000506 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 1150469000507 non-specific DNA interactions [nucleotide binding]; other site 1150469000508 DNA binding site [nucleotide binding] 1150469000509 sequence specific DNA binding site [nucleotide binding]; other site 1150469000510 putative cAMP binding site [chemical binding]; other site 1150469000511 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 1150469000512 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1150469000513 ligand binding site [chemical binding]; other site 1150469000514 flexible hinge region; other site 1150469000515 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1150469000516 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1150469000517 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1150469000518 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08927 1150469000519 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 1150469000520 Walker A motif/ATP binding site; other site 1150469000521 Walker B motif; other site 1150469000522 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1150469000523 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 1150469000524 active site 1150469000525 phosphorylation site [posttranslational modification] 1150469000526 intermolecular recognition site; other site 1150469000527 dimerization interface [polypeptide binding]; other site 1150469000528 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 1150469000529 DNA binding site [nucleotide binding] 1150469000530 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 1150469000531 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1150469000532 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1150469000533 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1150469000534 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 1150469000535 active site 1150469000536 phosphorylation site [posttranslational modification] 1150469000537 intermolecular recognition site; other site 1150469000538 dimerization interface [polypeptide binding]; other site 1150469000539 CheB methylesterase; Region: CheB_methylest; pfam01339 1150469000540 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 1150469000541 Response regulator receiver domain; Region: Response_reg; pfam00072 1150469000542 active site 1150469000543 phosphorylation site [posttranslational modification] 1150469000544 intermolecular recognition site; other site 1150469000545 dimerization interface [polypeptide binding]; other site 1150469000546 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 1150469000547 putative binding surface; other site 1150469000548 active site 1150469000549 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1150469000550 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1150469000551 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 1150469000552 ATP binding site [chemical binding]; other site 1150469000553 Mg2+ binding site [ion binding]; other site 1150469000554 G-X-G motif; other site 1150469000555 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 1150469000556 CheW-like domain; Region: CheW; pfam01584 1150469000557 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1150469000558 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 1150469000559 active site 1150469000560 phosphorylation site [posttranslational modification] 1150469000561 intermolecular recognition site; other site 1150469000562 dimerization interface [polypeptide binding]; other site 1150469000563 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 1150469000564 contig_45 1150469000565 magnesium chelatase subunit D; Provisional; Region: bchD; PRK13406 1150469000566 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 1150469000567 metal ion-dependent adhesion site (MIDAS); other site 1150469000568 putative magnesium chelatase accessory protein; Region: bchO_mg_che_rel; TIGR03056 1150469000569 TAP-like protein; Region: Abhydrolase_4; pfam08386 1150469000570 Domain of unknown function DUF59; Region: DUF59; pfam01883 1150469000571 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1150469000572 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 1150469000573 HflK protein; Region: hflK; TIGR01933 1150469000574 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 1150469000575 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 1150469000576 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1150469000577 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1150469000578 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 1150469000579 protein binding site [polypeptide binding]; other site 1150469000580 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 1150469000581 protein binding site [polypeptide binding]; other site 1150469000582 contig_88 1150469000583 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1150469000584 seryl-tRNA synthetase; Provisional; Region: PRK05431 1150469000585 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1150469000586 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 1150469000587 dimer interface [polypeptide binding]; other site 1150469000588 active site 1150469000589 motif 1; other site 1150469000590 motif 2; other site 1150469000591 motif 3; other site 1150469000592 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1150469000593 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 1150469000594 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 1150469000595 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1150469000596 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1150469000597 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 1150469000598 dimer interface [polypeptide binding]; other site 1150469000599 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1150469000600 catalytic residue [active] 1150469000601 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1150469000602 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 1150469000603 active site residue [active] 1150469000604 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 1150469000605 active site residue [active] 1150469000606 cystathionine beta-lyase; Provisional; Region: PRK09028 1150469000607 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 1150469000608 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1150469000609 catalytic residue [active] 1150469000610 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1150469000611 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1150469000612 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 1150469000613 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1150469000614 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 1150469000615 contig_43 1150469000616 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1150469000617 active site 1150469000618 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1150469000619 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 1150469000620 active site 1150469000621 phosphorylation site [posttranslational modification] 1150469000622 intermolecular recognition site; other site 1150469000623 dimerization interface [polypeptide binding]; other site 1150469000624 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 1150469000625 DNA binding site [nucleotide binding] 1150469000626 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1150469000627 PhoU domain; Region: PhoU; pfam01895 1150469000628 PhoU domain; Region: PhoU; pfam01895 1150469000629 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 1150469000630 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1150469000631 Walker A/P-loop; other site 1150469000632 ATP binding site [chemical binding]; other site 1150469000633 Q-loop/lid; other site 1150469000634 ABC transporter signature motif; other site 1150469000635 Walker B; other site 1150469000636 D-loop; other site 1150469000637 H-loop/switch region; other site 1150469000638 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 1150469000639 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1150469000640 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 1150469000641 dimer interface [polypeptide binding]; other site 1150469000642 conserved gate region; other site 1150469000643 putative PBP binding loops; other site 1150469000644 ABC-ATPase subunit interface; other site 1150469000645 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 1150469000646 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1150469000647 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 1150469000648 dimer interface [polypeptide binding]; other site 1150469000649 conserved gate region; other site 1150469000650 putative PBP binding loops; other site 1150469000651 ABC-ATPase subunit interface; other site 1150469000652 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 1150469000653 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 1150469000654 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1150469000655 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1150469000656 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 1150469000657 rRNA interaction site [nucleotide binding]; other site 1150469000658 S8 interaction site; other site 1150469000659 putative laminin-1 binding site; other site 1150469000660 elongation factor Ts; Provisional; Region: tsf; PRK09377 1150469000661 UBA/TS-N domain; Region: UBA; pfam00627 1150469000662 Elongation factor TS; Region: EF_TS; pfam00889 1150469000663 Elongation factor TS; Region: EF_TS; pfam00889 1150469000664 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 1150469000665 putative nucleotide binding site [chemical binding]; other site 1150469000666 uridine monophosphate binding site [chemical binding]; other site 1150469000667 homohexameric interface [polypeptide binding]; other site 1150469000668 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1150469000669 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 1150469000670 hinge region; other site 1150469000671 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 1150469000672 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 1150469000673 catalytic residue [active] 1150469000674 putative FPP diphosphate binding site; other site 1150469000675 putative FPP binding hydrophobic cleft; other site 1150469000676 dimer interface [polypeptide binding]; other site 1150469000677 putative IPP diphosphate binding site; other site 1150469000678 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1150469000679 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1150469000680 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1150469000681 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1150469000682 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1150469000683 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1150469000684 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1150469000685 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 1150469000686 active site 1150469000687 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 1150469000688 protein binding site [polypeptide binding]; other site 1150469000689 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1150469000690 putative substrate binding region [chemical binding]; other site 1150469000691 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1150469000692 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1150469000693 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1150469000694 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1150469000695 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1150469000696 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1150469000697 Surface antigen; Region: Bac_surface_Ag; pfam01103 1150469000698 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 1150469000699 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 1150469000700 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1150469000701 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 1150469000702 active site 1150469000703 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 1150469000704 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 1150469000705 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1150469000706 contig_85 1150469000707 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1150469000708 dimer interface [polypeptide binding]; other site 1150469000709 active site 1150469000710 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1150469000711 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 1150469000712 NADP binding site [chemical binding]; other site 1150469000713 homodimer interface [polypeptide binding]; other site 1150469000714 active site 1150469000715 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 1150469000716 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 1150469000717 putative catalytic residue [active] 1150469000718 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1150469000719 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1150469000720 enoyl-CoA hydratase; Provisional; Region: PRK05995 1150469000721 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 1150469000722 substrate binding site [chemical binding]; other site 1150469000723 oxyanion hole (OAH) forming residues; other site 1150469000724 trimer interface [polypeptide binding]; other site 1150469000725 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1150469000726 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1150469000727 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 1150469000728 carboxyltransferase (CT) interaction site; other site 1150469000729 biotinylation site [posttranslational modification]; other site 1150469000730 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1150469000731 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1150469000732 active site 1150469000733 catalytic residues [active] 1150469000734 metal binding site [ion binding]; metal-binding site 1150469000735 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469000736 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469000737 metal binding site [ion binding]; metal-binding site 1150469000738 active site 1150469000739 I-site; other site 1150469000740 contig_54 1150469000741 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1150469000742 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 1150469000743 putative DNA binding site [nucleotide binding]; other site 1150469000744 AsnC family; Region: AsnC_trans_reg; pfam01037 1150469000745 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1150469000746 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1150469000747 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1150469000748 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1150469000749 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1150469000750 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 1150469000751 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 1150469000752 cobalt transport protein CbiM; Validated; Region: PRK06265 1150469000753 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1150469000754 contig_83 1150469000755 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 1150469000756 CPxP motif; other site 1150469000757 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 1150469000758 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1150469000759 metal binding site 2 [ion binding]; metal-binding site 1150469000760 putative DNA binding helix; other site 1150469000761 metal binding site 1 [ion binding]; metal-binding site 1150469000762 dimer interface [polypeptide binding]; other site 1150469000763 structural Zn2+ binding site [ion binding]; other site 1150469000764 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1150469000765 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1150469000766 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1150469000767 putative acyl-acceptor binding pocket; other site 1150469000768 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1150469000769 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1150469000770 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 1150469000771 FeS/SAM binding site; other site 1150469000772 TRAM domain; Region: TRAM; pfam01938 1150469000773 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1150469000774 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl17245 1150469000775 PhoH-like protein; Region: PhoH; pfam02562 1150469000777 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 1150469000778 FOG: CBS domain [General function prediction only]; Region: COG0517 1150469000779 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 1150469000780 Transporter associated domain; Region: CorC_HlyC; smart01091 1150469000781 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1150469000782 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1150469000783 putative active site [active] 1150469000784 catalytic triad [active] 1150469000785 putative dimer interface [polypeptide binding]; other site 1150469000786 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1150469000787 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 1150469000788 sequence-specific DNA binding site [nucleotide binding]; other site 1150469000789 salt bridge; other site 1150469000790 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1150469000791 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1150469000792 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1150469000793 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1150469000794 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 1150469000795 contig_56 1150469000796 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 1150469000797 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1150469000798 Substrate binding site; other site 1150469000799 Mg++ binding site; other site 1150469000800 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 1150469000801 active site 1150469000802 substrate binding site [chemical binding]; other site 1150469000803 CoA binding site [chemical binding]; other site 1150469000804 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1150469000805 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 1150469000806 motif II; other site 1150469000807 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 1150469000808 FlgN protein; Region: FlgN; pfam05130 1150469000809 Rod binding protein; Region: Rod-binding; cl01626 1150469000810 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1150469000811 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1150469000812 Class II flagellar assembly regulator; Region: FliX; pfam10768 1150469000813 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1150469000814 Flagellar protein FlaF; Region: FlaF; cl11454 1150469000815 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 1150469000816 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 1150469000817 SAF-like; Region: SAF_2; pfam13144 1150469000818 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1150469000819 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 1150469000820 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 1150469000821 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1150469000822 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1150469000823 flagellar hook-basal body protein; Region: FlgEFG_subfam; TIGR03506 1150469000824 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1150469000825 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1150469000826 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 1150469000827 flagellar motor switch protein FliM; Region: fliM_switch; TIGR01397 1150469000828 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1150469000829 Uncharacterized conserved protein [Function unknown]; Region: COG3334 1150469000830 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1150469000831 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 1150469000832 active site 1150469000833 phosphorylation site [posttranslational modification] 1150469000834 intermolecular recognition site; other site 1150469000835 dimerization interface [polypeptide binding]; other site 1150469000836 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 1150469000837 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 1150469000838 ligand binding site [chemical binding]; other site 1150469000839 flexible hinge region; other site 1150469000840 contig_66 1150469000841 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 1150469000842 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 1150469000843 alpha subunit interface [polypeptide binding]; other site 1150469000844 TPP binding site [chemical binding]; other site 1150469000845 heterodimer interface [polypeptide binding]; other site 1150469000846 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1150469000847 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1150469000848 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 1150469000849 tetramer interface [polypeptide binding]; other site 1150469000850 TPP-binding site [chemical binding]; other site 1150469000851 heterodimer interface [polypeptide binding]; other site 1150469000852 phosphorylation loop region [posttranslational modification] 1150469000853 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 1150469000854 dimerization interface [polypeptide binding]; other site 1150469000855 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1150469000856 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 1150469000857 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469000858 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469000859 metal binding site [ion binding]; metal-binding site 1150469000860 active site 1150469000861 I-site; other site 1150469000862 contig_33 1150469000863 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1150469000864 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 1150469000865 aspartate kinase; Reviewed; Region: PRK06635 1150469000866 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 1150469000867 putative nucleotide binding site [chemical binding]; other site 1150469000868 putative catalytic residues [active] 1150469000869 putative Mg ion binding site [ion binding]; other site 1150469000870 putative aspartate binding site [chemical binding]; other site 1150469000871 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 1150469000872 putative allosteric regulatory site; other site 1150469000873 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 1150469000874 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 1150469000875 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1150469000876 FMN binding site [chemical binding]; other site 1150469000877 substrate binding site [chemical binding]; other site 1150469000878 putative catalytic residue [active] 1150469000879 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 1150469000880 GAF domain; Region: GAF; pfam01590 1150469000881 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1150469000882 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1150469000883 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1150469000884 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1150469000885 heme-binding site [chemical binding]; other site 1150469000886 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469000887 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469000888 dimer interface [polypeptide binding]; other site 1150469000889 putative CheW interface [polypeptide binding]; other site 1150469000890 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1150469000891 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 1150469000892 dimerization interface [polypeptide binding]; other site 1150469000893 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469000894 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469000895 dimer interface [polypeptide binding]; other site 1150469000896 putative CheW interface [polypeptide binding]; other site 1150469000897 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1150469000898 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1150469000899 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1150469000900 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 1150469000901 Phosphotransferase enzyme family; Region: APH; pfam01636 1150469000902 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1150469000903 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 1150469000904 Substrate binding site; other site 1150469000905 metal-binding site 1150469000906 contig_93 1150469000907 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1150469000908 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1150469000909 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1150469000910 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1150469000911 DNA binding site [nucleotide binding] 1150469000912 domain linker motif; other site 1150469000913 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1150469000914 dimerization interface [polypeptide binding]; other site 1150469000915 ligand binding site [chemical binding]; other site 1150469000916 PAS domain S-box; Region: sensory_box; TIGR00229 1150469000917 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 1150469000918 putative active site [active] 1150469000919 heme pocket [chemical binding]; other site 1150469000920 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 1150469000921 PAS domain; Region: PAS_9; pfam13426 1150469000922 putative active site [active] 1150469000923 heme pocket [chemical binding]; other site 1150469000924 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469000925 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469000926 metal binding site [ion binding]; metal-binding site 1150469000927 active site 1150469000928 I-site; other site 1150469000929 contig_14 1150469000930 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1150469000931 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1150469000932 Cache domain; Region: Cache_1; pfam02743 1150469000933 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 1150469000934 dimerization interface [polypeptide binding]; other site 1150469000935 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469000936 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469000937 dimer interface [polypeptide binding]; other site 1150469000938 putative CheW interface [polypeptide binding]; other site 1150469000939 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1150469000940 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 1150469000941 dimer interface [polypeptide binding]; other site 1150469000942 conserved gate region; other site 1150469000943 putative PBP binding loops; other site 1150469000944 ABC-ATPase subunit interface; other site 1150469000945 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 1150469000946 dimer interface [polypeptide binding]; other site 1150469000947 conserved gate region; other site 1150469000948 putative PBP binding loops; other site 1150469000949 ABC-ATPase subunit interface; other site 1150469000950 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1150469000951 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469000952 Walker A/P-loop; other site 1150469000953 ATP binding site [chemical binding]; other site 1150469000954 Q-loop/lid; other site 1150469000955 ABC transporter signature motif; other site 1150469000956 Walker B; other site 1150469000957 D-loop; other site 1150469000958 H-loop/switch region; other site 1150469000959 TOBE domain; Region: TOBE_2; pfam08402 1150469000960 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1150469000961 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1150469000962 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1150469000963 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1150469000964 Cytochrome c; Region: Cytochrom_C; cl11414 1150469000965 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1150469000966 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1150469000967 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1150469000968 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 1150469000969 DNA binding residues [nucleotide binding] 1150469000970 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1150469000971 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 1150469000972 ligand binding site [chemical binding]; other site 1150469000973 flexible hinge region; other site 1150469000974 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1150469000975 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 1150469000976 ligand binding site [chemical binding]; other site 1150469000977 flexible hinge region; other site 1150469000978 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 1150469000979 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1150469000980 EamA-like transporter family; Region: EamA; pfam00892 1150469000981 transketolase; Reviewed; Region: PRK12753 1150469000982 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 1150469000983 TPP-binding site [chemical binding]; other site 1150469000984 dimer interface [polypeptide binding]; other site 1150469000985 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 1150469000986 PYR/PP interface [polypeptide binding]; other site 1150469000987 dimer interface [polypeptide binding]; other site 1150469000988 TPP binding site [chemical binding]; other site 1150469000989 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1150469000990 Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to...; Region: PRK_like; cd02029 1150469000991 fructose-1,6-bisphosphatase family protein; Region: PLN02628 1150469000992 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 1150469000993 AMP binding site [chemical binding]; other site 1150469000994 metal binding site [ion binding]; metal-binding site 1150469000995 active site 1150469000996 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 1150469000997 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1150469000998 substrate binding site [chemical binding]; other site 1150469000999 hexamer interface [polypeptide binding]; other site 1150469001000 metal binding site [ion binding]; metal-binding site 1150469001001 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1150469001002 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1150469001003 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 1150469001004 putative dimerization interface [polypeptide binding]; other site 1150469001005 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 1150469001006 PAS fold; Region: PAS_3; pfam08447 1150469001007 putative active site [active] 1150469001008 heme pocket [chemical binding]; other site 1150469001009 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 1150469001010 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 1150469001011 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1150469001012 putative DNA binding site [nucleotide binding]; other site 1150469001013 putative Zn2+ binding site [ion binding]; other site 1150469001014 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 1150469001015 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1150469001016 S-adenosylmethionine binding site [chemical binding]; other site 1150469001017 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 1150469001018 FAD binding site [chemical binding]; other site 1150469001019 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 1150469001020 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 1150469001021 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 1150469001022 substrate binding pocket [chemical binding]; other site 1150469001023 dimer interface [polypeptide binding]; other site 1150469001024 inhibitor binding site; inhibition site 1150469001025 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 1150469001026 B12 binding site [chemical binding]; other site 1150469001027 cobalt ligand [ion binding]; other site 1150469001028 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1150469001029 Staphylococcal nuclease homologues; Region: SNc; smart00318 1150469001030 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 1150469001031 Catalytic site; other site 1150469001032 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1150469001033 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 1150469001034 FeS/SAM binding site; other site 1150469001035 contig_16 1150469001036 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 1150469001037 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 1150469001038 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1150469001039 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1150469001040 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1150469001041 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1150469001042 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1150469001043 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 1150469001044 Walker A motif; other site 1150469001045 ATP binding site [chemical binding]; other site 1150469001046 Walker B motif; other site 1150469001047 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1150469001048 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 1150469001049 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 1150469001050 dimerization interface [polypeptide binding]; other site 1150469001051 ATP binding site [chemical binding]; other site 1150469001052 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 1150469001053 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 1150469001054 HupF/HypC family; Region: HupF_HypC; pfam01455 1150469001055 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 1150469001056 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 1150469001057 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 1150469001058 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 1150469001059 HupF/HypC family; Region: HupF_HypC; cl00394 1150469001060 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 1150469001061 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 1150469001062 putative substrate-binding site; other site 1150469001063 nickel binding site [ion binding]; other site 1150469001064 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 1150469001065 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 1150469001066 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 1150469001067 hydrogenase 1 large subunit; Provisional; Region: PRK10170 1150469001068 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 1150469001069 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 1150469001070 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 1150469001071 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 1150469001072 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1150469001073 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1150469001074 putative coenzyme Q binding site [chemical binding]; other site 1150469001075 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1150469001076 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 1150469001077 active site 1150469001078 phosphorylation site [posttranslational modification] 1150469001079 intermolecular recognition site; other site 1150469001080 dimerization interface [polypeptide binding]; other site 1150469001081 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 1150469001082 DNA binding residues [nucleotide binding] 1150469001083 dimerization interface [polypeptide binding]; other site 1150469001084 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 1150469001085 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 1150469001086 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469001087 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469001088 metal binding site [ion binding]; metal-binding site 1150469001089 active site 1150469001090 I-site; other site 1150469001091 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 1150469001092 Lipopolysaccharide-assembly; Region: LptE; pfam04390 1150469001093 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1150469001094 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1150469001095 HIGH motif; other site 1150469001096 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1150469001097 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1150469001098 active site 1150469001099 KMSKS motif; other site 1150469001100 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1150469001101 tRNA binding surface [nucleotide binding]; other site 1150469001102 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 1150469001103 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 1150469001104 thiamine phosphate binding site [chemical binding]; other site 1150469001105 pyrophosphate binding site [ion binding]; other site 1150469001106 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1150469001107 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1150469001108 catalytic residue [active] 1150469001109 Transposase domain (DUF772); Region: DUF772; pfam05598 1150469001110 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1150469001111 DDE superfamily endonuclease; Region: DDE_4; cl17710 1150469001112 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1150469001113 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1150469001114 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1150469001115 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1150469001116 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1150469001117 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 1150469001118 carboxyltransferase (CT) interaction site; other site 1150469001119 biotinylation site [posttranslational modification]; other site 1150469001120 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1150469001121 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1150469001122 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1150469001123 NUC130/3NT domain; Region: NUC130_3NT; pfam08158 1150469001124 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1150469001125 MutS domain I; Region: MutS_I; pfam01624 1150469001126 MutS domain II; Region: MutS_II; pfam05188 1150469001127 MutS domain III; Region: MutS_III; pfam05192 1150469001128 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1150469001129 Walker A/P-loop; other site 1150469001130 ATP binding site [chemical binding]; other site 1150469001131 Q-loop/lid; other site 1150469001132 ABC transporter signature motif; other site 1150469001133 Walker B; other site 1150469001134 D-loop; other site 1150469001135 H-loop/switch region; other site 1150469001136 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1150469001137 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1150469001138 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1150469001139 putative NAD(P) binding site [chemical binding]; other site 1150469001140 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1150469001141 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1150469001142 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 1150469001143 dimer interface [polypeptide binding]; other site 1150469001144 phosphorylation site [posttranslational modification] 1150469001145 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 1150469001146 ATP binding site [chemical binding]; other site 1150469001147 Mg2+ binding site [ion binding]; other site 1150469001148 G-X-G motif; other site 1150469001149 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1150469001150 PhoU domain; Region: PhoU; pfam01895 1150469001151 PhoU domain; Region: PhoU; pfam01895 1150469001152 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1150469001153 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1150469001154 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1150469001155 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1150469001156 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 1150469001157 active site 1150469001158 dimer interface [polypeptide binding]; other site 1150469001159 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 1150469001160 active site 1150469001161 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 1150469001162 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1150469001163 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 1150469001164 motif 1; other site 1150469001165 active site 1150469001166 motif 2; other site 1150469001167 motif 3; other site 1150469001168 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1150469001169 contig_78 1150469001170 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1150469001171 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1150469001172 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1150469001173 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469001174 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469001175 dimer interface [polypeptide binding]; other site 1150469001176 putative CheW interface [polypeptide binding]; other site 1150469001177 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1150469001178 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1150469001179 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 1150469001180 dimerization interface [polypeptide binding]; other site 1150469001181 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469001182 dimer interface [polypeptide binding]; other site 1150469001183 putative CheW interface [polypeptide binding]; other site 1150469001184 SIR2-like domain; Region: SIR2_2; pfam13289 1150469001185 NifT/FixU protein; Region: NifT; pfam06988 1150469001186 NifZ domain; Region: NifZ; pfam04319 1150469001187 LRV protein FeS4 cluster; Region: LRV_FeS; pfam05484 1150469001188 HEAT repeats; Region: HEAT_2; pfam13646 1150469001189 4Fe-4S binding domain; Region: Fer4; cl02805 1150469001190 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 1150469001191 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 1150469001192 FeS/SAM binding site; other site 1150469001193 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 1150469001194 contig_74 1150469001195 tRNA-specific 2-thiouridylase MnmA; Reviewed; Region: mnmA; PRK00143 1150469001196 epoxyqueuosine reductase; Region: TIGR00276 1150469001197 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1150469001198 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1150469001199 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1150469001200 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08913 1150469001201 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1150469001202 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1150469001203 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 1150469001204 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1150469001205 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1150469001206 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1150469001207 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1150469001208 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1150469001209 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1150469001210 Flagellar hook capping protein [Cell motility and secretion]; Region: FlgD; COG1843 1150469001211 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1150469001212 flagellin; Provisional; Region: PRK12806 1150469001213 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1150469001214 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1150469001215 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1150469001216 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1150469001217 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1150469001218 Flagellar protein FliS; Region: FliS; cl00654 1150469001219 RNA polymerase sigma factor; Reviewed; Region: PRK05602 1150469001220 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1150469001221 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 1150469001222 DNA binding residues [nucleotide binding] 1150469001223 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 1150469001224 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1150469001225 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1150469001226 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1150469001227 CDP-alcohol phosphatidyltransferase 2; Region: CDP-OH_P_tran_2; pfam08009 1150469001228 contig_20 1150469001229 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1150469001230 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 1150469001231 active site 1150469001232 phosphorylation site [posttranslational modification] 1150469001233 intermolecular recognition site; other site 1150469001234 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 1150469001235 DNA binding site [nucleotide binding] 1150469001236 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1150469001237 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 1150469001238 ATP binding site [chemical binding]; other site 1150469001239 Mg2+ binding site [ion binding]; other site 1150469001240 G-X-G motif; other site 1150469001241 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 1150469001242 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 1150469001243 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1150469001244 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1150469001245 Staphylococcal nuclease homologues; Region: SNc; smart00318 1150469001246 Catalytic site; other site 1150469001247 ParB-like nuclease domain; Region: ParBc; pfam02195 1150469001248 contig_63 1150469001249 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1150469001250 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 1150469001251 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 1150469001252 [2Fe-2S] cluster binding site [ion binding]; other site 1150469001253 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1150469001254 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 1150469001255 active site 1150469001256 phosphorylation site [posttranslational modification] 1150469001257 intermolecular recognition site; other site 1150469001258 dimerization interface [polypeptide binding]; other site 1150469001259 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 1150469001260 DNA binding site [nucleotide binding] 1150469001261 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 1150469001262 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1150469001263 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1150469001264 DNA binding residues [nucleotide binding] 1150469001265 putative dimer interface [polypeptide binding]; other site 1150469001266 contig_60 1150469001267 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 1150469001268 CrcB-like protein; Region: CRCB; cl09114 1150469001269 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 1150469001270 active site 1150469001271 substrate-binding site [chemical binding]; other site 1150469001272 metal-binding site [ion binding] 1150469001273 GTP binding site [chemical binding]; other site 1150469001274 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1150469001275 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469001276 dimer interface [polypeptide binding]; other site 1150469001277 putative CheW interface [polypeptide binding]; other site 1150469001278 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 1150469001279 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469001280 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469001281 dimer interface [polypeptide binding]; other site 1150469001282 putative CheW interface [polypeptide binding]; other site 1150469001283 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1150469001284 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1150469001285 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 1150469001286 active site 1150469001287 phosphorylation site [posttranslational modification] 1150469001288 intermolecular recognition site; other site 1150469001289 dimerization interface [polypeptide binding]; other site 1150469001290 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 1150469001291 DNA binding site [nucleotide binding] 1150469001292 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 1150469001293 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 1150469001294 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1150469001295 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 1150469001296 dimer interface [polypeptide binding]; other site 1150469001297 phosphorylation site [posttranslational modification] 1150469001298 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 1150469001299 ATP binding site [chemical binding]; other site 1150469001300 Mg2+ binding site [ion binding]; other site 1150469001301 G-X-G motif; other site 1150469001302 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1150469001303 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 1150469001304 putative active site [active] 1150469001305 catalytic triad [active] 1150469001306 putative dimer interface [polypeptide binding]; other site 1150469001307 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 1150469001308 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1150469001309 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1150469001310 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 1150469001311 Walker A motif; other site 1150469001312 ATP binding site [chemical binding]; other site 1150469001313 Walker B motif; other site 1150469001314 arginine finger; other site 1150469001315 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1150469001316 tartrate dehydrogenase; Region: TTC; TIGR02089 1150469001317 contig_42 1150469001318 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 1150469001319 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1150469001320 Peptidase family M48; Region: Peptidase_M48; cl12018 1150469001321 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1150469001322 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 1150469001323 TPR motif; other site 1150469001324 binding surface 1150469001325 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 1150469001326 aspartate aminotransferase; Provisional; Region: PRK05764 1150469001327 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 1150469001328 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1150469001329 homodimer interface [polypeptide binding]; other site 1150469001330 catalytic residue [active] 1150469001331 AAA domain; Region: AAA_22; pfam13401 1150469001332 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 1150469001333 Mu B transposition protein, C terminal; Region: Phage-MuB_C; pfam09077 1150469001334 contig_36 1150469001335 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1150469001336 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1150469001337 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 1150469001338 anti sigma factor interaction site; other site 1150469001339 regulatory phosphorylation site [posttranslational modification]; other site 1150469001340 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 1150469001341 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 1150469001342 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1150469001343 active site 1150469001344 catalytic site [active] 1150469001345 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 1150469001346 anti sigma factor interaction site; other site 1150469001347 regulatory phosphorylation site [posttranslational modification]; other site 1150469001348 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 1150469001349 dimerization interface [polypeptide binding]; other site 1150469001350 putative active cleft [active] 1150469001351 contig_61 1150469001352 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1150469001353 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1150469001354 Walker A/P-loop; other site 1150469001355 ATP binding site [chemical binding]; other site 1150469001356 Q-loop/lid; other site 1150469001357 ABC transporter signature motif; other site 1150469001358 Walker B; other site 1150469001359 D-loop; other site 1150469001360 H-loop/switch region; other site 1150469001361 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1150469001362 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 1150469001363 putative ligand binding site [chemical binding]; other site 1150469001364 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1150469001365 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 1150469001366 TM-ABC transporter signature motif; other site 1150469001367 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 1150469001368 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1150469001369 TM-ABC transporter signature motif; other site 1150469001370 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1150469001371 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1150469001372 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1150469001373 acyl-activating enzyme (AAE) consensus motif; other site 1150469001374 putative AMP binding site [chemical binding]; other site 1150469001375 putative active site [active] 1150469001376 putative CoA binding site [chemical binding]; other site 1150469001377 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1150469001378 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1150469001379 Walker A/P-loop; other site 1150469001380 ATP binding site [chemical binding]; other site 1150469001381 Q-loop/lid; other site 1150469001382 ABC transporter signature motif; other site 1150469001383 Walker B; other site 1150469001384 D-loop; other site 1150469001385 H-loop/switch region; other site 1150469001386 excinuclease ABC subunit B; Provisional; Region: PRK05298 1150469001387 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 1150469001388 ATP binding site [chemical binding]; other site 1150469001389 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 1150469001390 nucleotide binding region [chemical binding]; other site 1150469001391 ATP-binding site [chemical binding]; other site 1150469001392 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1150469001393 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1150469001394 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1150469001395 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 1150469001396 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1150469001397 active site 1150469001398 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 1150469001399 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1150469001400 NusB family; Region: NusB; pfam01029 1150469001401 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 1150469001402 S-adenosylmethionine binding site [chemical binding]; other site 1150469001403 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1150469001404 NodB motif; other site 1150469001405 putative active site [active] 1150469001406 putative catalytic site [active] 1150469001407 Zn binding site [ion binding]; other site 1150469001408 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 1150469001409 dimer interface [polypeptide binding]; other site 1150469001410 active site 1150469001411 contig_80 1150469001412 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1150469001413 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1150469001414 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469001415 Walker A/P-loop; other site 1150469001416 ATP binding site [chemical binding]; other site 1150469001417 Q-loop/lid; other site 1150469001418 ABC transporter signature motif; other site 1150469001419 Walker B; other site 1150469001420 D-loop; other site 1150469001421 H-loop/switch region; other site 1150469001422 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1150469001423 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 1150469001424 NMT1/THI5 like; Region: NMT1; pfam09084 1150469001425 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; cl17432 1150469001426 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1150469001427 putative active site [active] 1150469001428 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1150469001429 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 1150469001430 amidase catalytic site [active] 1150469001431 Zn binding residues [ion binding]; other site 1150469001432 substrate binding site [chemical binding]; other site 1150469001433 EamA-like transporter family; Region: EamA; pfam00892 1150469001434 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1150469001435 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 1150469001436 putative metal binding site [ion binding]; other site 1150469001437 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 1150469001438 HSP70 interaction site [polypeptide binding]; other site 1150469001439 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1150469001440 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1150469001441 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1150469001442 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1150469001443 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 1150469001444 substrate-cofactor binding pocket; other site 1150469001445 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1150469001446 catalytic residue [active] 1150469001447 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 1150469001448 Ligand Binding Site [chemical binding]; other site 1150469001449 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1150469001450 nudix motif; other site 1150469001451 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1150469001452 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 1150469001453 putative dimer interface [polypeptide binding]; other site 1150469001454 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1150469001455 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1150469001456 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1150469001457 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1150469001458 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 1150469001459 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1150469001460 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 1150469001461 heterotetramer interface [polypeptide binding]; other site 1150469001462 active site pocket [active] 1150469001463 cleavage site 1150469001464 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 1150469001465 active site 1150469001466 8-oxo-dGMP binding site [chemical binding]; other site 1150469001467 nudix motif; other site 1150469001468 metal binding site [ion binding]; metal-binding site 1150469001469 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1150469001470 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 1150469001471 ATP binding site [chemical binding]; other site 1150469001472 substrate interface [chemical binding]; other site 1150469001473 contig_12 1150469001474 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 1150469001475 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 1150469001476 active site 1150469001477 motif I; other site 1150469001478 motif II; other site 1150469001479 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1150469001480 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 1150469001481 ATP binding site [chemical binding]; other site 1150469001482 Mg2+ binding site [ion binding]; other site 1150469001483 G-X-G motif; other site 1150469001484 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 1150469001485 ATP binding site [chemical binding]; other site 1150469001486 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1150469001487 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1150469001488 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 1150469001489 active site 1150469001490 dimer interface [polypeptide binding]; other site 1150469001491 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 1150469001492 dimer interface [polypeptide binding]; other site 1150469001493 active site 1150469001494 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1150469001495 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 1150469001496 active site 1150469001497 catalytic residues [active] 1150469001498 DNA binding site [nucleotide binding] 1150469001499 Int/Topo IB signature motif; other site 1150469001500 Helix-turn-helix domain; Region: HTH_17; cl17695 1150469001501 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 1150469001502 active site 1150469001503 metal binding site [ion binding]; metal-binding site 1150469001504 interdomain interaction site; other site 1150469001505 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 1150469001506 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 1150469001507 addiction module antidote protein, HigA family; Region: antidote_HigA; TIGR02607 1150469001508 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1150469001509 contig_19 1150469001510 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1150469001511 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1150469001512 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 1150469001513 putative effector binding pocket; other site 1150469001514 dimerization interface [polypeptide binding]; other site 1150469001515 hopanoid-associated phosphorylase; Region: HpnG; TIGR03468 1150469001516 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 1150469001517 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 1150469001518 Active site cavity [active] 1150469001519 catalytic acid [active] 1150469001520 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 1150469001521 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 1150469001522 active site 1150469001523 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1150469001524 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1150469001525 active site lid residues [active] 1150469001526 substrate binding pocket [chemical binding]; other site 1150469001527 catalytic residues [active] 1150469001528 substrate-Mg2+ binding site; other site 1150469001529 aspartate-rich region 1; other site 1150469001530 aspartate-rich region 2; other site 1150469001531 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1150469001532 active site lid residues [active] 1150469001533 substrate binding pocket [chemical binding]; other site 1150469001534 catalytic residues [active] 1150469001535 substrate-Mg2+ binding site; other site 1150469001536 aspartate-rich region 1; other site 1150469001537 aspartate-rich region 2; other site 1150469001538 PAS domain S-box; Region: sensory_box; TIGR00229 1150469001539 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 1150469001540 putative active site [active] 1150469001541 heme pocket [chemical binding]; other site 1150469001542 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 1150469001543 PAS domain; Region: PAS_9; pfam13426 1150469001544 putative active site [active] 1150469001545 heme pocket [chemical binding]; other site 1150469001546 PAS domain S-box; Region: sensory_box; TIGR00229 1150469001547 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 1150469001548 putative active site [active] 1150469001549 heme pocket [chemical binding]; other site 1150469001550 PAS domain S-box; Region: sensory_box; TIGR00229 1150469001551 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 1150469001552 putative active site [active] 1150469001553 heme pocket [chemical binding]; other site 1150469001554 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1150469001555 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 1150469001556 dimer interface [polypeptide binding]; other site 1150469001557 phosphorylation site [posttranslational modification] 1150469001558 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 1150469001559 ATP binding site [chemical binding]; other site 1150469001560 Mg2+ binding site [ion binding]; other site 1150469001561 G-X-G motif; other site 1150469001562 MgtE intracellular N domain; Region: MgtE_N; smart00924 1150469001563 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1150469001564 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 1150469001565 Cl binding site [ion binding]; other site 1150469001566 oligomer interface [polypeptide binding]; other site 1150469001567 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1150469001568 HlyD family secretion protein; Region: HlyD_3; pfam13437 1150469001569 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 1150469001570 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1150469001571 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469001572 Walker A/P-loop; other site 1150469001573 ATP binding site [chemical binding]; other site 1150469001574 Q-loop/lid; other site 1150469001575 ABC transporter signature motif; other site 1150469001576 Walker B; other site 1150469001577 D-loop; other site 1150469001578 H-loop/switch region; other site 1150469001579 Cytochrome C' Region: Cytochrom_C_2; pfam01322 1150469001580 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 1150469001581 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 1150469001582 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 1150469001583 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 1150469001584 FeS/SAM binding site; other site 1150469001585 cobyric acid synthase; Provisional; Region: PRK00784 1150469001586 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 1150469001587 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1150469001588 catalytic triad [active] 1150469001589 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 1150469001590 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1150469001591 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 1150469001592 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1150469001593 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 1150469001594 non-specific DNA binding site [nucleotide binding]; other site 1150469001595 salt bridge; other site 1150469001596 sequence-specific DNA binding site [nucleotide binding]; other site 1150469001597 Predicted transcriptional regulator [Transcription]; Region: COG2932 1150469001598 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 1150469001599 Catalytic site [active] 1150469001600 PAS domain S-box; Region: sensory_box; TIGR00229 1150469001601 PAS domain; Region: PAS; smart00091 1150469001602 PAS domain; Region: PAS_9; pfam13426 1150469001603 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 1150469001604 putative active site [active] 1150469001605 heme pocket [chemical binding]; other site 1150469001606 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 1150469001607 dimer interface [polypeptide binding]; other site 1150469001608 phosphorylation site [posttranslational modification] 1150469001609 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 1150469001610 ATP binding site [chemical binding]; other site 1150469001611 Mg2+ binding site [ion binding]; other site 1150469001612 G-X-G motif; other site 1150469001613 circadian clock protein KaiC; Reviewed; Region: PRK09302 1150469001614 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 1150469001615 Walker A motif; other site 1150469001616 ATP binding site [chemical binding]; other site 1150469001617 Walker B motif; other site 1150469001618 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 1150469001619 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 1150469001620 Walker A motif; other site 1150469001621 Walker A motif; other site 1150469001622 ATP binding site [chemical binding]; other site 1150469001623 Walker B motif; other site 1150469001624 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part...; Region: KaiB_like; cd02978 1150469001625 tetramer interface [polypeptide binding]; other site 1150469001626 dimer interface [polypeptide binding]; other site 1150469001627 chaperone protein DnaJ; Provisional; Region: PRK14299 1150469001628 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 1150469001629 HSP70 interaction site [polypeptide binding]; other site 1150469001630 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1150469001631 substrate binding site [polypeptide binding]; other site 1150469001632 dimer interface [polypeptide binding]; other site 1150469001633 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1150469001634 Cation efflux family; Region: Cation_efflux; cl00316 1150469001635 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469001636 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469001637 putative CheW interface [polypeptide binding]; other site 1150469001638 CheD chemotactic sensory transduction; Region: CheD; cl00810 1150469001639 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1150469001640 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 1150469001641 active site 1150469001642 phosphorylation site [posttranslational modification] 1150469001643 intermolecular recognition site; other site 1150469001644 dimerization interface [polypeptide binding]; other site 1150469001645 CheB methylesterase; Region: CheB_methylest; pfam01339 1150469001646 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 1150469001647 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1150469001648 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 1150469001649 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 1150469001650 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1150469001651 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 1150469001652 dimerization interface [polypeptide binding]; other site 1150469001653 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469001654 dimer interface [polypeptide binding]; other site 1150469001655 putative CheW interface [polypeptide binding]; other site 1150469001656 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1150469001657 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 1150469001658 dimerization interface [polypeptide binding]; other site 1150469001659 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469001660 dimer interface [polypeptide binding]; other site 1150469001661 putative CheW interface [polypeptide binding]; other site 1150469001662 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 1150469001663 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 1150469001664 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1150469001665 putative binding surface; other site 1150469001666 active site 1150469001667 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1150469001668 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 1150469001669 ATP binding site [chemical binding]; other site 1150469001670 Mg2+ binding site [ion binding]; other site 1150469001671 G-X-G motif; other site 1150469001672 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 1150469001673 Response regulator receiver domain; Region: Response_reg; pfam00072 1150469001674 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 1150469001675 active site 1150469001676 phosphorylation site [posttranslational modification] 1150469001677 intermolecular recognition site; other site 1150469001678 dimerization interface [polypeptide binding]; other site 1150469001679 STAS domain; Region: STAS_2; pfam13466 1150469001680 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1150469001681 ribonuclease D; Region: rnd; TIGR01388 1150469001682 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1150469001683 catalytic site [active] 1150469001684 putative active site [active] 1150469001685 putative substrate binding site [chemical binding]; other site 1150469001686 HRDC domain; Region: HRDC; pfam00570 1150469001687 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1150469001688 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1150469001689 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1150469001690 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 1150469001691 active site 1150469001692 dimer interface [polypeptide binding]; other site 1150469001693 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1150469001694 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 1150469001695 active site 1150469001696 FMN binding site [chemical binding]; other site 1150469001697 substrate binding site [chemical binding]; other site 1150469001698 3Fe-4S cluster binding site [ion binding]; other site 1150469001699 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 1150469001700 domain interface; other site 1150469001701 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 1150469001702 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1150469001703 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1150469001704 Bacitracin resistance protein BacA; Region: BacA; pfam02673 1150469001705 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 1150469001706 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1150469001707 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_2; cd03814 1150469001708 Protein of unknown function (DUF721); Region: DUF721; pfam05258 1150469001709 contig_51 1150469001710 Transglycosylase; Region: Transgly; pfam00912 1150469001711 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1150469001712 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1150469001713 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1150469001714 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1150469001715 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1150469001716 O-succinylhomoserine sulfhydrylase; Provisional; Region: PRK07810 1150469001717 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 1150469001718 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1150469001719 catalytic residue [active] 1150469001720 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469001721 dimer interface [polypeptide binding]; other site 1150469001722 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1150469001723 putative CheW interface [polypeptide binding]; other site 1150469001724 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 1150469001725 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 1150469001726 Nif-specific regulatory protein; Region: nifA; TIGR01817 1150469001727 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1150469001728 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 1150469001729 Walker A motif; other site 1150469001730 ATP binding site [chemical binding]; other site 1150469001731 Walker B motif; other site 1150469001732 arginine finger; other site 1150469001733 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1150469001734 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1150469001735 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 1150469001736 dimerization interface [polypeptide binding]; other site 1150469001737 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469001738 dimer interface [polypeptide binding]; other site 1150469001739 putative CheW interface [polypeptide binding]; other site 1150469001740 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1150469001741 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 1150469001742 DNA binding residues [nucleotide binding] 1150469001743 dimerization interface [polypeptide binding]; other site 1150469001744 Dinitrogenase reductase ADP-ribosyltransferase (DRAT); Region: DRAT; pfam07357 1150469001745 Fe-only nitrogenase, beta subunit; Region: anfK_nitrog; TIGR02931 1150469001746 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 1150469001747 Vanadium/alternative nitrogenase delta subunit; Region: AnfG_VnfG; pfam03139 1150469001748 nitrogenase iron-iron protein, alpha chain; Region: ANFD; TIGR01861 1150469001749 Nitrogenase_VFe_alpha -like: Nitrogenase VFe protein, alpha subunit like. This group contains proteins similar to the alpha subunits of, the VFe protein of the vanadium-dependent (V-) nitrogenase and the FeFe protein of the iron only (Fe-) nitrogenase...; Region: Nitrogenase_VFe_alpha; cd01977 1150469001750 nitrogenase iron protein; Region: nifH; TIGR01287 1150469001751 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 1150469001752 Nucleotide-binding sites [chemical binding]; other site 1150469001753 Walker A motif; other site 1150469001754 Switch I region of nucleotide binding site; other site 1150469001755 Fe4S4 binding sites [ion binding]; other site 1150469001756 Switch II region of nucleotide binding site; other site 1150469001757 contig_106 1150469001758 GMP synthase; Reviewed; Region: guaA; PRK00074 1150469001759 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1150469001760 AMP/PPi binding site [chemical binding]; other site 1150469001761 candidate oxyanion hole; other site 1150469001762 catalytic triad [active] 1150469001763 potential glutamine specificity residues [chemical binding]; other site 1150469001764 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 1150469001765 ATP Binding subdomain [chemical binding]; other site 1150469001766 Ligand Binding sites [chemical binding]; other site 1150469001767 Dimerization subdomain; other site 1150469001768 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1150469001769 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1150469001770 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1150469001771 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1150469001772 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 1150469001773 contig_107 1150469001774 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 1150469001775 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1150469001776 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 1150469001777 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1150469001778 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 1150469001779 DNA binding residues [nucleotide binding] 1150469001780 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1150469001781 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 1150469001782 oligomerisation interface [polypeptide binding]; other site 1150469001783 mobile loop; other site 1150469001784 roof hairpin; other site 1150469001785 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1150469001786 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 1150469001787 ring oligomerisation interface [polypeptide binding]; other site 1150469001788 ATP/Mg binding site [chemical binding]; other site 1150469001789 stacking interactions; other site 1150469001790 hinge regions; other site 1150469001791 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1150469001792 AsnC family; Region: AsnC_trans_reg; pfam01037 1150469001793 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 1150469001794 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 1150469001795 active site 1150469001796 HIGH motif; other site 1150469001797 nucleotide binding site [chemical binding]; other site 1150469001798 active site 1150469001799 KMSKS motif; other site 1150469001800 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1150469001801 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1150469001802 active site 1150469001803 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 1150469001804 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 1150469001805 putative acyltransferase; Provisional; Region: PRK05790 1150469001806 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1150469001807 dimer interface [polypeptide binding]; other site 1150469001808 active site 1150469001809 BioY family; Region: BioY; pfam02632 1150469001810 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 1150469001811 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 1150469001812 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1150469001813 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1150469001814 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1150469001815 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1150469001816 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1150469001817 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1150469001818 Coenzyme A binding pocket [chemical binding]; other site 1150469001819 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 1150469001820 N-formylglutamate amidohydrolase; Region: FGase; cl01522 1150469001821 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1150469001822 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1150469001823 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1150469001824 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 1150469001825 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 1150469001826 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1150469001827 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 1150469001828 Ligand Binding Site [chemical binding]; other site 1150469001829 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1150469001830 GAF domain; Region: GAF_3; pfam13492 1150469001831 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 1150469001832 dimer interface [polypeptide binding]; other site 1150469001833 phosphorylation site [posttranslational modification] 1150469001834 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 1150469001835 ATP binding site [chemical binding]; other site 1150469001836 Mg2+ binding site [ion binding]; other site 1150469001837 G-X-G motif; other site 1150469001838 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1150469001839 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 1150469001840 active site 1150469001841 phosphorylation site [posttranslational modification] 1150469001842 intermolecular recognition site; other site 1150469001843 dimerization interface [polypeptide binding]; other site 1150469001844 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 1150469001845 DNA binding site [nucleotide binding] 1150469001846 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; pfam09923 1150469001847 mce related protein; Region: MCE; pfam02470 1150469001848 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1150469001849 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1150469001850 mce related protein; Region: MCE; pfam02470 1150469001851 NADH dehydrogenase; Validated; Region: PRK08183 1150469001852 contig_125 1150469001853 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1150469001854 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1150469001855 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 1150469001856 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1150469001857 NAD binding site [chemical binding]; other site 1150469001858 dimerization interface [polypeptide binding]; other site 1150469001859 product binding site; other site 1150469001860 substrate binding site [chemical binding]; other site 1150469001861 zinc binding site [ion binding]; other site 1150469001862 catalytic residues [active] 1150469001863 Uncharacterized protein family (UPF0262); Region: UPF0262; cl11489 1150469001864 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1150469001865 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1150469001866 active site 1150469001867 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 1150469001868 rRNA binding site [nucleotide binding]; other site 1150469001869 predicted 30S ribosome binding site; other site 1150469001870 Maf-like protein; Region: Maf; pfam02545 1150469001871 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 1150469001872 active site 1150469001873 dimer interface [polypeptide binding]; other site 1150469001874 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1150469001875 RNA binding site [nucleotide binding]; other site 1150469001876 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 1150469001877 contig_64 1150469001878 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 1150469001879 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 1150469001880 S-adenosylmethionine binding site [chemical binding]; other site 1150469001881 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 1150469001882 FAD/NAD binding domain (electron transfer subunit) of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate...; Region: DHOD_e_trans_like; cd06192 1150469001883 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 1150469001884 FAD binding pocket [chemical binding]; other site 1150469001885 FAD binding motif [chemical binding]; other site 1150469001886 phosphate binding motif [ion binding]; other site 1150469001887 beta-alpha-beta structure motif; other site 1150469001888 NAD binding pocket [chemical binding]; other site 1150469001889 Iron coordination center [ion binding]; other site 1150469001890 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 1150469001891 Cation efflux family; Region: Cation_efflux; cl00316 1150469001892 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_15; cd04673 1150469001893 nudix motif; other site 1150469001894 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1150469001895 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 1150469001896 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469001897 dimer interface [polypeptide binding]; other site 1150469001898 putative CheW interface [polypeptide binding]; other site 1150469001899 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469001900 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469001901 metal binding site [ion binding]; metal-binding site 1150469001902 active site 1150469001903 I-site; other site 1150469001904 contig_23 1150469001905 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 1150469001906 metal ion-dependent adhesion site (MIDAS); other site 1150469001907 MoxR-like ATPases [General function prediction only]; Region: COG0714 1150469001908 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 1150469001909 Walker A motif; other site 1150469001910 ATP binding site [chemical binding]; other site 1150469001911 Walker B motif; other site 1150469001912 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 1150469001913 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 1150469001914 multimerization interface [polypeptide binding]; other site 1150469001915 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 1150469001916 Ribulose bisphosphate carboxylase large chain; Region: RuBisCO_large; cl08232 1150469001917 dimer interface [polypeptide binding]; other site 1150469001918 catalytic residue [active] 1150469001919 metal binding site [ion binding]; metal-binding site 1150469001920 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1150469001921 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1150469001922 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 1150469001923 dimerization interface [polypeptide binding]; other site 1150469001924 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 1150469001925 LexA repressor; Validated; Region: PRK00215 1150469001926 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1150469001927 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 1150469001928 Catalytic site [active] 1150469001929 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 1150469001930 active site 1150469001931 ribulose/triose binding site [chemical binding]; other site 1150469001932 phosphate binding site [ion binding]; other site 1150469001933 substrate (anthranilate) binding pocket [chemical binding]; other site 1150469001934 product (indole) binding pocket [chemical binding]; other site 1150469001935 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1150469001936 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1150469001937 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1150469001938 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1150469001939 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1150469001940 glutamine binding [chemical binding]; other site 1150469001941 catalytic triad [active] 1150469001942 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1150469001943 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 1150469001944 metal-binding site [ion binding] 1150469001945 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1150469001946 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1150469001947 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 1150469001948 motif II; other site 1150469001949 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1150469001950 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469001951 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469001952 dimer interface [polypeptide binding]; other site 1150469001953 putative CheW interface [polypeptide binding]; other site 1150469001954 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 1150469001955 dimer interface [polypeptide binding]; other site 1150469001956 phosphorylation site [posttranslational modification] 1150469001957 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 1150469001958 ATP binding site [chemical binding]; other site 1150469001959 Mg2+ binding site [ion binding]; other site 1150469001960 G-X-G motif; other site 1150469001961 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1150469001963 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1150469001964 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 1150469001965 ATP binding site [chemical binding]; other site 1150469001966 Mg2+ binding site [ion binding]; other site 1150469001967 G-X-G motif; other site 1150469001968 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 1150469001969 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 1150469001970 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 1150469001971 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 1150469001972 active site 1150469001973 phosphorylation site [posttranslational modification] 1150469001974 intermolecular recognition site; other site 1150469001975 dimerization interface [polypeptide binding]; other site 1150469001976 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1150469001977 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 1150469001978 active site 1150469001979 phosphorylation site [posttranslational modification] 1150469001980 intermolecular recognition site; other site 1150469001981 dimerization interface [polypeptide binding]; other site 1150469001982 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1150469001983 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 1150469001984 P-loop; other site 1150469001985 Magnesium ion binding site [ion binding]; other site 1150469001986 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 1150469001987 Magnesium ion binding site [ion binding]; other site 1150469001988 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 1150469001989 putative binding surface; other site 1150469001990 active site 1150469001991 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1150469001992 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1150469001993 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 1150469001994 ATP binding site [chemical binding]; other site 1150469001995 Mg2+ binding site [ion binding]; other site 1150469001996 G-X-G motif; other site 1150469001997 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 1150469001998 Response regulator receiver domain; Region: Response_reg; pfam00072 1150469001999 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 1150469002000 active site 1150469002001 phosphorylation site [posttranslational modification] 1150469002002 intermolecular recognition site; other site 1150469002003 dimerization interface [polypeptide binding]; other site 1150469002004 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1150469002005 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1150469002006 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1150469002008 HEAT repeats; Region: HEAT_2; pfam13646 1150469002009 HEAT repeats; Region: HEAT_2; pfam13646 1150469002010 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1150469002011 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 1150469002012 active site 1150469002013 phosphorylation site [posttranslational modification] 1150469002014 intermolecular recognition site; other site 1150469002015 dimerization interface [polypeptide binding]; other site 1150469002016 CheB methylesterase; Region: CheB_methylest; pfam01339 1150469002017 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1150469002018 CheW-like domain; Region: CheW; pfam01584 1150469002019 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1150469002020 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469002021 dimer interface [polypeptide binding]; other site 1150469002022 putative CheW interface [polypeptide binding]; other site 1150469002023 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469002024 dimer interface [polypeptide binding]; other site 1150469002025 putative CheW interface [polypeptide binding]; other site 1150469002026 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 1150469002027 PAS domain; Region: PAS_9; pfam13426 1150469002028 putative active site [active] 1150469002029 heme pocket [chemical binding]; other site 1150469002030 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469002031 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469002032 metal binding site [ion binding]; metal-binding site 1150469002033 active site 1150469002034 I-site; other site 1150469002035 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 1150469002036 active site 1150469002037 phosphorylation site [posttranslational modification] 1150469002038 intermolecular recognition site; other site 1150469002039 dimerization interface [polypeptide binding]; other site 1150469002040 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 1150469002041 FeS/SAM binding site; other site 1150469002042 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 1150469002043 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 1150469002044 ATP cone domain; Region: ATP-cone; pfam03477 1150469002045 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1150469002046 effector binding site; other site 1150469002047 active site 1150469002048 Zn binding site [ion binding]; other site 1150469002049 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1150469002050 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1150469002051 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1150469002052 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1150469002053 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1150469002054 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 1150469002055 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1150469002056 acyl-activating enzyme (AAE) consensus motif; other site 1150469002057 AMP binding site [chemical binding]; other site 1150469002058 active site 1150469002059 CoA binding site [chemical binding]; other site 1150469002060 contig_26 1150469002061 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1150469002062 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 1150469002063 muropeptide transporter; Validated; Region: ampG; cl17669 1150469002064 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 1150469002065 S-adenosylmethionine binding site [chemical binding]; other site 1150469002066 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1150469002067 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1150469002068 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1150469002069 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469002070 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469002071 dimer interface [polypeptide binding]; other site 1150469002072 putative CheW interface [polypeptide binding]; other site 1150469002073 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 1150469002074 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 1150469002075 putative dimer interface [polypeptide binding]; other site 1150469002076 [2Fe-2S] cluster binding site [ion binding]; other site 1150469002077 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1150469002078 SLBB domain; Region: SLBB; pfam10531 1150469002079 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1150469002080 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 1150469002081 catalytic loop [active] 1150469002082 iron binding site [ion binding]; other site 1150469002083 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 1150469002084 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 1150469002085 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 1150469002086 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 1150469002087 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 1150469002088 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 1150469002089 FeS/SAM binding site; other site 1150469002090 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1150469002091 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1150469002092 Aspartase; Region: Aspartase; cd01357 1150469002093 active sites [active] 1150469002094 tetramer interface [polypeptide binding]; other site 1150469002095 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 1150469002096 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 1150469002097 G1 box; other site 1150469002098 GTP/Mg2+ binding site [chemical binding]; other site 1150469002099 Switch I region; other site 1150469002100 G2 box; other site 1150469002101 Switch II region; other site 1150469002102 G3 box; other site 1150469002103 G4 box; other site 1150469002105 biotin synthase; Provisional; Region: PRK07094 1150469002106 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 1150469002107 FeS/SAM binding site; other site 1150469002108 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1150469002109 contig_46 1150469002110 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1150469002111 PRC-barrel domain; Region: PRC; pfam05239 1150469002112 CsbD-like; Region: CsbD; pfam05532 1150469002113 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1150469002114 ligand binding site [chemical binding]; other site 1150469002115 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1150469002116 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1150469002117 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1150469002118 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1150469002119 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1150469002120 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1150469002121 Walker A/P-loop; other site 1150469002122 ATP binding site [chemical binding]; other site 1150469002123 Q-loop/lid; other site 1150469002124 ABC transporter signature motif; other site 1150469002125 Walker B; other site 1150469002126 D-loop; other site 1150469002127 H-loop/switch region; other site 1150469002128 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1150469002129 Walker A/P-loop; other site 1150469002130 ATP binding site [chemical binding]; other site 1150469002131 Q-loop/lid; other site 1150469002132 ABC transporter signature motif; other site 1150469002133 Walker B; other site 1150469002134 D-loop; other site 1150469002135 H-loop/switch region; other site 1150469002136 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1150469002137 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1150469002138 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1150469002139 HlyD family secretion protein; Region: HlyD_3; pfam13437 1150469002140 Outer membrane efflux protein; Region: OEP; pfam02321 1150469002141 Outer membrane efflux protein; Region: OEP; pfam02321 1150469002142 contig_59 1150469002143 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1150469002144 nucleotide binding site [chemical binding]; other site 1150469002145 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 1150469002146 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1150469002147 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1150469002148 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 1150469002149 DNA-binding site [nucleotide binding]; DNA binding site 1150469002150 RNA-binding motif; other site 1150469002151 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 1150469002152 DNA-binding site [nucleotide binding]; DNA binding site 1150469002153 RNA-binding motif; other site 1150469002154 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 1150469002155 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1150469002156 4Fe-4S binding domain; Region: Fer4; pfam00037 1150469002157 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1150469002158 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 1150469002159 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 1150469002160 RNA binding surface [nucleotide binding]; other site 1150469002161 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 1150469002162 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 1150469002163 nucleotide binding region [chemical binding]; other site 1150469002164 ATP-binding site [chemical binding]; other site 1150469002165 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 1150469002166 30S subunit binding site; other site 1150469002167 heat shock protein 90; Provisional; Region: PRK05218 1150469002168 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 1150469002169 ATP binding site [chemical binding]; other site 1150469002170 Mg2+ binding site [ion binding]; other site 1150469002171 G-X-G motif; other site 1150469002172 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1150469002173 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1150469002174 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 1150469002175 dimerization interface [polypeptide binding]; other site 1150469002176 enolase; Provisional; Region: eno; PRK00077 1150469002177 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 1150469002178 dimer interface [polypeptide binding]; other site 1150469002179 metal binding site [ion binding]; metal-binding site 1150469002180 substrate binding pocket [chemical binding]; other site 1150469002181 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1150469002182 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1150469002183 CTP synthetase; Validated; Region: pyrG; PRK05380 1150469002184 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 1150469002185 Catalytic site [active] 1150469002186 active site 1150469002187 UTP binding site [chemical binding]; other site 1150469002188 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1150469002189 active site 1150469002190 putative oxyanion hole; other site 1150469002191 catalytic triad [active] 1150469002192 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 1150469002193 triosephosphate isomerase; Provisional; Region: PRK14565 1150469002194 substrate binding site [chemical binding]; other site 1150469002195 dimer interface [polypeptide binding]; other site 1150469002196 catalytic triad [active] 1150469002197 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1150469002198 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 1150469002199 P-loop; other site 1150469002200 Magnesium ion binding site [ion binding]; other site 1150469002201 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1150469002202 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1150469002203 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1150469002204 ABC transporter; Region: ABC_tran_2; pfam12848 1150469002205 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1150469002206 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1150469002207 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1150469002208 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 1150469002209 Restriction endonuclease XhoI; Region: XhoI; pfam04555 1150469002210 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1150469002211 active site 1150469002212 Zn binding site [ion binding]; other site 1150469002213 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 1150469002214 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 1150469002215 active site 1150469002216 SAM binding site [chemical binding]; other site 1150469002217 homodimer interface [polypeptide binding]; other site 1150469002218 cobyric acid synthase; Provisional; Region: PRK00784 1150469002219 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 1150469002220 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1150469002221 catalytic triad [active] 1150469002222 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1150469002223 active site 1150469002224 SAM binding site [chemical binding]; other site 1150469002225 putative homodimer interface [polypeptide binding]; other site 1150469002226 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 1150469002227 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 1150469002228 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 1150469002229 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1150469002230 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1150469002231 ligand binding site [chemical binding]; other site 1150469002232 NAD binding site [chemical binding]; other site 1150469002233 tetramer interface [polypeptide binding]; other site 1150469002234 catalytic site [active] 1150469002235 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1150469002236 L-serine binding site [chemical binding]; other site 1150469002237 ACT domain interface; other site 1150469002238 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_1; cd02199 1150469002239 homotrimer interaction site [polypeptide binding]; other site 1150469002240 putative active site [active] 1150469002241 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1150469002242 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1150469002243 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 1150469002244 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1150469002245 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1150469002246 active site 1150469002247 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1150469002248 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 1150469002249 NAD(P) binding site [chemical binding]; other site 1150469002250 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 1150469002251 contig_109 1150469002252 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1150469002253 ABC transporter signature motif; other site 1150469002254 Walker B; other site 1150469002255 D-loop; other site 1150469002256 H-loop/switch region; other site 1150469002257 glutathione reductase; Validated; Region: PRK06116 1150469002258 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1150469002259 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1150469002260 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1150469002261 Response regulator receiver domain; Region: Response_reg; pfam00072 1150469002262 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 1150469002263 active site 1150469002264 phosphorylation site [posttranslational modification] 1150469002265 intermolecular recognition site; other site 1150469002266 dimerization interface [polypeptide binding]; other site 1150469002267 contig_39 1150469002268 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 1150469002269 Ligand binding site [chemical binding]; other site 1150469002270 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1150469002271 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 1150469002272 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 1150469002273 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1150469002274 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 1150469002275 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1150469002276 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1150469002277 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 1150469002278 active site 1150469002279 PAS domain; Region: PAS; smart00091 1150469002280 PAS domain; Region: PAS_9; pfam13426 1150469002281 PAS domain S-box; Region: sensory_box; TIGR00229 1150469002282 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 1150469002283 putative active site [active] 1150469002284 heme pocket [chemical binding]; other site 1150469002285 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469002286 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469002287 metal binding site [ion binding]; metal-binding site 1150469002288 active site 1150469002289 I-site; other site 1150469002290 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 1150469002291 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1150469002292 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1150469002293 active site 1150469002294 HIGH motif; other site 1150469002295 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1150469002296 KMSKS motif; other site 1150469002297 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1150469002298 tRNA binding surface [nucleotide binding]; other site 1150469002299 anticodon binding site; other site 1150469002300 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1150469002301 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 1150469002302 active site 1150469002303 HIGH motif; other site 1150469002304 nucleotide binding site [chemical binding]; other site 1150469002305 active site 1150469002306 KMSKS motif; other site 1150469002307 NAD synthetase; Provisional; Region: PRK13981 1150469002308 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1150469002309 multimer interface [polypeptide binding]; other site 1150469002310 active site 1150469002311 catalytic triad [active] 1150469002312 protein interface 1 [polypeptide binding]; other site 1150469002313 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 1150469002314 homodimer interface [polypeptide binding]; other site 1150469002315 NAD binding pocket [chemical binding]; other site 1150469002316 ATP binding pocket [chemical binding]; other site 1150469002317 Mg binding site [ion binding]; other site 1150469002318 active-site loop [active] 1150469002319 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469002320 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469002321 dimer interface [polypeptide binding]; other site 1150469002322 putative CheW interface [polypeptide binding]; other site 1150469002323 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1150469002324 tellurite resistance protein terB; Region: terB; cd07176 1150469002325 putative metal binding site [ion binding]; other site 1150469002326 Uncharacterized protein involved in stress response [General function prediction only]; Region: COG4110 1150469002327 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1150469002328 putative metal binding site [ion binding]; other site 1150469002329 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 1150469002330 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1150469002331 putative metal binding site [ion binding]; other site 1150469002332 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 1150469002333 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1150469002334 putative metal binding site [ion binding]; other site 1150469002335 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1150469002336 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1150469002337 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1150469002338 HlyD family secretion protein; Region: HlyD_3; pfam13437 1150469002339 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1150469002340 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 1150469002341 contig_34 1150469002342 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1150469002343 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1150469002344 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1150469002345 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1150469002346 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 1150469002347 Cysteine-rich small domain; Region: zf-like; cl00946 1150469002348 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1150469002349 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1150469002350 PhoH-like protein; Region: PhoH; pfam02562 1150469002351 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1150469002352 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 1150469002353 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1150469002354 active site 1150469002355 catalytic site [active] 1150469002356 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1150469002357 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1150469002358 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1150469002359 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1150469002360 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 1150469002361 DNA binding residues [nucleotide binding] 1150469002362 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1150469002363 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1150469002364 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1150469002365 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1150469002366 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 1150469002367 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1150469002368 binding surface 1150469002369 TPR motif; other site 1150469002370 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1150469002371 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1150469002372 pseudouridine synthase; Region: TIGR00093 1150469002373 active site 1150469002374 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1150469002375 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 1150469002376 P-loop; other site 1150469002377 Magnesium ion binding site [ion binding]; other site 1150469002378 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 1150469002379 Magnesium ion binding site [ion binding]; other site 1150469002380 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1150469002381 CoenzymeA binding site [chemical binding]; other site 1150469002382 subunit interaction site [polypeptide binding]; other site 1150469002383 PHB binding site; other site 1150469002384 fructokinase; Reviewed; Region: PRK09557 1150469002385 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1150469002386 nucleotide binding site [chemical binding]; other site 1150469002387 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1150469002388 HAMP domain; Region: HAMP; pfam00672 1150469002389 PAS domain; Region: PAS_9; pfam13426 1150469002390 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469002391 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469002392 dimer interface [polypeptide binding]; other site 1150469002393 putative CheW interface [polypeptide binding]; other site 1150469002394 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 1150469002395 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1150469002396 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 1150469002397 homodimer interface [polypeptide binding]; other site 1150469002398 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 1150469002399 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1150469002400 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1150469002401 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1150469002402 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 1150469002403 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1150469002404 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 1150469002405 Active Sites [active] 1150469002406 contig_70 1150469002407 CreA protein; Region: CreA; pfam05981 1150469002408 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1150469002409 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1150469002410 zinc binding site [ion binding]; other site 1150469002411 putative ligand binding site [chemical binding]; other site 1150469002412 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 1150469002413 TM-ABC transporter signature motif; other site 1150469002414 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1150469002415 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469002416 Walker A/P-loop; other site 1150469002417 ATP binding site [chemical binding]; other site 1150469002418 Q-loop/lid; other site 1150469002419 ABC transporter signature motif; other site 1150469002420 Walker B; other site 1150469002421 D-loop; other site 1150469002422 H-loop/switch region; other site 1150469002423 Sulfatase; Region: Sulfatase; cl17466 1150469002424 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1150469002425 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 1150469002426 active site 1150469002427 phosphorylation site [posttranslational modification] 1150469002428 intermolecular recognition site; other site 1150469002429 dimerization interface [polypeptide binding]; other site 1150469002430 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 1150469002431 Walker A motif; other site 1150469002432 ATP binding site [chemical binding]; other site 1150469002433 Walker B motif; other site 1150469002434 arginine finger; other site 1150469002435 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1150469002436 CHAP domain; Region: CHAP; cl17642 1150469002437 enoyl-CoA hydratase; Validated; Region: PRK08139 1150469002438 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 1150469002439 substrate binding site [chemical binding]; other site 1150469002440 oxyanion hole (OAH) forming residues; other site 1150469002441 trimer interface [polypeptide binding]; other site 1150469002442 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 1150469002443 23S rRNA interface [nucleotide binding]; other site 1150469002444 L3 interface [polypeptide binding]; other site 1150469002445 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1150469002446 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1150469002447 contig_65 1150469002448 Helix-turn-helix domain; Region: HTH_39; pfam14090 1150469002449 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1150469002450 Integrase core domain; Region: rve; pfam00665 1150469002451 Integrase core domain; Region: rve_3; cl15866 1150469002452 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1150469002453 AAA domain; Region: AAA_22; pfam13401 1150469002454 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 1150469002455 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 1150469002456 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1150469002457 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 1150469002458 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 1150469002459 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 1150469002460 Terminase-like family; Region: Terminase_6; pfam03237 1150469002461 Protein of unknown function (DUF935); Region: DUF935; pfam06074 1150469002462 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 1150469002463 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1150469002464 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 1150469002465 contig_100 1150469002466 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 1150469002467 oligomer interface [polypeptide binding]; other site 1150469002468 active site residues [active] 1150469002469 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 1150469002470 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 1150469002471 contig_99 1150469002472 pyridoxine 5'-phosphate synthase; Provisional; Region: PRK05265 1150469002473 hydrophilic channel; other site 1150469002474 active site 1150469002475 catalytic residues [active] 1150469002476 active site lid [active] 1150469002477 dimerization interface [polypeptide binding]; other site 1150469002478 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1150469002479 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 1150469002480 Catalytic site [active] 1150469002481 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 1150469002482 ribonuclease III; Reviewed; Region: rnc; PRK00102 1150469002483 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 1150469002484 dimerization interface [polypeptide binding]; other site 1150469002485 active site 1150469002486 metal binding site [ion binding]; metal-binding site 1150469002487 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 1150469002488 dsRNA binding site [nucleotide binding]; other site 1150469002489 GTPase Era; Reviewed; Region: era; PRK00089 1150469002490 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1150469002491 G1 box; other site 1150469002492 GTP/Mg2+ binding site [chemical binding]; other site 1150469002493 Switch I region; other site 1150469002494 G2 box; other site 1150469002495 Switch II region; other site 1150469002496 G3 box; other site 1150469002497 G4 box; other site 1150469002498 G5 box; other site 1150469002499 KH domain; Region: KH_2; pfam07650 1150469002500 Recombination protein O N terminal; Region: RecO_N; pfam11967 1150469002501 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1150469002502 Recombination protein O C terminal; Region: RecO_C; pfam02565 1150469002503 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 1150469002504 SmpB-tmRNA interface; other site 1150469002505 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1150469002506 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1150469002507 dimer interface [polypeptide binding]; other site 1150469002508 active site 1150469002509 catalytic residue [active] 1150469002510 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1150469002511 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 1150469002512 active site 1150469002513 phosphorylation site [posttranslational modification] 1150469002514 intermolecular recognition site; other site 1150469002515 dimerization interface [polypeptide binding]; other site 1150469002516 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1150469002517 Zn2+ binding site [ion binding]; other site 1150469002518 Mg2+ binding site [ion binding]; other site 1150469002519 contig_55 1150469002520 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1150469002521 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 1150469002522 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1150469002523 catalytic residue [active] 1150469002524 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1150469002525 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1150469002526 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1150469002527 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1150469002528 active site 1150469002529 SAM binding site [chemical binding]; other site 1150469002530 homodimer interface [polypeptide binding]; other site 1150469002531 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 1150469002532 TPR motif; other site 1150469002533 binding surface 1150469002534 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 1150469002535 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 1150469002536 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1150469002537 RNA/DNA hybrid binding site [nucleotide binding]; other site 1150469002538 active site 1150469002539 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1150469002540 DNA methylase; Region: N6_N4_Mtase; pfam01555 1150469002541 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 1150469002542 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 1150469002543 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1150469002544 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 1150469002545 dimerization interface [polypeptide binding]; other site 1150469002546 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469002547 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469002548 dimer interface [polypeptide binding]; other site 1150469002549 putative CheW interface [polypeptide binding]; other site 1150469002550 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1150469002551 LysR family transcriptional regulator; Provisional; Region: PRK14997 1150469002552 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 1150469002553 putative effector binding pocket; other site 1150469002554 dimerization interface [polypeptide binding]; other site 1150469002555 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1150469002556 Fic/DOC family; Region: Fic; pfam02661 1150469002557 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1150469002558 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 1150469002559 putative substrate translocation pore; other site 1150469002560 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1150469002561 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 1150469002562 motif II; other site 1150469002563 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1150469002564 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 1150469002565 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1150469002566 CysD dimerization site [polypeptide binding]; other site 1150469002567 G1 box; other site 1150469002568 putative GEF interaction site [polypeptide binding]; other site 1150469002569 GTP/Mg2+ binding site [chemical binding]; other site 1150469002570 Switch I region; other site 1150469002571 G2 box; other site 1150469002572 G3 box; other site 1150469002573 Switch II region; other site 1150469002574 G4 box; other site 1150469002575 G5 box; other site 1150469002576 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 1150469002577 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 1150469002578 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 1150469002579 ligand-binding site [chemical binding]; other site 1150469002580 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1150469002581 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 1150469002582 Active Sites [active] 1150469002583 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 1150469002584 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 1150469002585 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1150469002586 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 1150469002587 Cu(I) binding site [ion binding]; other site 1150469002588 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1150469002589 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1150469002590 Phasin protein; Region: Phasin_2; pfam09361 1150469002591 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 1150469002592 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1150469002593 homodimer interface [polypeptide binding]; other site 1150469002594 substrate-cofactor binding pocket; other site 1150469002595 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1150469002596 catalytic residue [active] 1150469002597 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1150469002598 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1150469002599 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 1150469002600 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 1150469002601 ATP binding site [chemical binding]; other site 1150469002602 Mg2+ binding site [ion binding]; other site 1150469002603 G-X-G motif; other site 1150469002604 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1150469002605 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1150469002606 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1150469002607 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 1150469002608 ligand binding site [chemical binding]; other site 1150469002609 flexible hinge region; other site 1150469002610 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1150469002611 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1150469002612 tetrameric interface [polypeptide binding]; other site 1150469002613 NAD binding site [chemical binding]; other site 1150469002614 catalytic residues [active] 1150469002615 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1150469002616 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 1150469002617 inhibitor-cofactor binding pocket; inhibition site 1150469002618 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1150469002619 catalytic residue [active] 1150469002620 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1150469002621 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1150469002622 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 1150469002623 dimerization interface [polypeptide binding]; other site 1150469002624 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1150469002625 GAF domain; Region: GAF_2; pfam13185 1150469002626 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1150469002627 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 1150469002628 Walker A motif; other site 1150469002629 ATP binding site [chemical binding]; other site 1150469002630 Walker B motif; other site 1150469002631 arginine finger; other site 1150469002632 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1150469002633 contig_44 1150469002634 SCP-2 sterol transfer family; Region: SCP2; cl01225 1150469002635 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1150469002636 Peptidase family U32; Region: Peptidase_U32; pfam01136 1150469002637 Peptidase family U32; Region: Peptidase_U32; cl03113 1150469002638 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1150469002639 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 1150469002640 dimerization interface [polypeptide binding]; other site 1150469002641 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469002642 dimer interface [polypeptide binding]; other site 1150469002643 putative CheW interface [polypeptide binding]; other site 1150469002644 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1150469002645 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1150469002646 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1150469002647 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1150469002648 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1150469002649 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 1150469002650 catalytic residues [active] 1150469002651 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 1150469002652 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1150469002653 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1150469002654 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1150469002655 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4337 1150469002656 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1150469002657 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1150469002658 dimerization interface [polypeptide binding]; other site 1150469002659 ligand binding site [chemical binding]; other site 1150469002660 NADP binding site [chemical binding]; other site 1150469002661 catalytic site [active] 1150469002662 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1150469002663 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1150469002664 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1150469002665 integral membrane protein MviN; Region: mviN; TIGR01695 1150469002666 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1150469002667 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1150469002668 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 1150469002669 dimerization interface [polypeptide binding]; other site 1150469002670 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469002671 dimer interface [polypeptide binding]; other site 1150469002672 putative CheW interface [polypeptide binding]; other site 1150469002673 contig_86 1150469002674 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1150469002675 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 1150469002676 dimer interface [polypeptide binding]; other site 1150469002677 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1150469002678 catalytic residue [active] 1150469002679 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 1150469002680 NRDE protein; Region: NRDE; cl01315 1150469002681 Domain of unknown function (DUF1476); Region: DUF1476; pfam07345 1150469002682 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1150469002683 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1150469002684 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1150469002685 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1150469002686 contig_104 1150469002687 PAS domain; Region: PAS; smart00091 1150469002688 PAS domain; Region: PAS_9; pfam13426 1150469002689 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469002690 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469002691 metal binding site [ion binding]; metal-binding site 1150469002692 active site 1150469002693 I-site; other site 1150469002694 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1150469002695 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1150469002696 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1150469002697 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 1150469002698 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 1150469002699 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 1150469002700 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 1150469002701 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1150469002702 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1150469002703 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1150469002704 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1150469002705 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1150469002706 contig_91 1150469002707 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 1150469002708 PAS domain; Region: PAS_9; pfam13426 1150469002709 putative active site [active] 1150469002710 heme pocket [chemical binding]; other site 1150469002711 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 1150469002712 PAS domain; Region: PAS_9; pfam13426 1150469002713 putative active site [active] 1150469002714 heme pocket [chemical binding]; other site 1150469002715 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469002716 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469002717 metal binding site [ion binding]; metal-binding site 1150469002718 active site 1150469002719 I-site; other site 1150469002720 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 1150469002721 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1150469002722 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 1150469002723 Walker A/P-loop; other site 1150469002724 ATP binding site [chemical binding]; other site 1150469002725 Q-loop/lid; other site 1150469002726 ABC transporter signature motif; other site 1150469002727 Walker B; other site 1150469002728 D-loop; other site 1150469002729 H-loop/switch region; other site 1150469002730 Cobalt transport protein; Region: CbiQ; cl00463 1150469002731 cobalt transport protein CbiN; Provisional; Region: PRK02898 1150469002732 cobalt transport protein CbiM; Validated; Region: PRK08319 1150469002733 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1150469002734 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1150469002735 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1150469002736 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469002737 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469002738 metal binding site [ion binding]; metal-binding site 1150469002739 active site 1150469002740 I-site; other site 1150469002741 ATPase MipZ; Region: MipZ; pfam09140 1150469002742 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 1150469002743 P-loop; other site 1150469002744 Magnesium ion binding site [ion binding]; other site 1150469002745 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 1150469002746 Magnesium ion binding site [ion binding]; other site 1150469002747 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1150469002748 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1150469002749 active site 1150469002750 tetramer interface; other site 1150469002751 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1150469002752 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1150469002753 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1150469002754 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1150469002755 phosphoglucomutase; Region: PLN02307 1150469002756 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 1150469002757 substrate binding site [chemical binding]; other site 1150469002758 dimer interface [polypeptide binding]; other site 1150469002759 active site 1150469002760 metal binding site [ion binding]; metal-binding site 1150469002761 contig_49 1150469002762 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1150469002763 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1150469002764 RmuC family; Region: RmuC; pfam02646 1150469002765 PAS fold; Region: PAS_7; pfam12860 1150469002766 PAS fold; Region: PAS_7; pfam12860 1150469002767 PAS domain S-box; Region: sensory_box; TIGR00229 1150469002768 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 1150469002769 putative active site [active] 1150469002770 heme pocket [chemical binding]; other site 1150469002771 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 1150469002772 PAS fold; Region: PAS_3; pfam08447 1150469002773 putative active site [active] 1150469002774 heme pocket [chemical binding]; other site 1150469002775 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 1150469002776 dimer interface [polypeptide binding]; other site 1150469002777 phosphorylation site [posttranslational modification] 1150469002778 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 1150469002779 ATP binding site [chemical binding]; other site 1150469002780 Mg2+ binding site [ion binding]; other site 1150469002781 G-X-G motif; other site 1150469002782 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 1150469002783 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 1150469002784 dimerization interface [polypeptide binding]; other site 1150469002785 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469002786 dimer interface [polypeptide binding]; other site 1150469002787 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1150469002788 putative CheW interface [polypeptide binding]; other site 1150469002789 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 1150469002790 dimerization interface [polypeptide binding]; other site 1150469002791 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 1150469002792 dimer interface [polypeptide binding]; other site 1150469002793 phosphorylation site [posttranslational modification] 1150469002794 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 1150469002795 ATP binding site [chemical binding]; other site 1150469002796 Mg2+ binding site [ion binding]; other site 1150469002797 G-X-G motif; other site 1150469002798 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1150469002799 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1150469002800 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1150469002801 ABC transporter; Region: ABC_tran_2; pfam12848 1150469002802 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1150469002803 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1150469002804 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 1150469002805 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 1150469002806 metal ion-dependent adhesion site (MIDAS); other site 1150469002807 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1150469002808 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1150469002809 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 1150469002810 Walker A motif; other site 1150469002811 ATP binding site [chemical binding]; other site 1150469002812 Walker B motif; other site 1150469002813 arginine finger; other site 1150469002814 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 1150469002815 DnaA box-binding interface [nucleotide binding]; other site 1150469002816 DNA polymerase III subunit beta; Validated; Region: PRK05643 1150469002817 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 1150469002818 putative DNA binding surface [nucleotide binding]; other site 1150469002819 dimer interface [polypeptide binding]; other site 1150469002820 beta-clamp/clamp loader binding surface; other site 1150469002821 beta-clamp/translesion DNA polymerase binding surface; other site 1150469002822 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469002823 ATP binding site [chemical binding]; other site 1150469002824 Walker A/P-loop; other site 1150469002825 Q-loop/lid; other site 1150469002826 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469002827 ABC transporter signature motif; other site 1150469002828 Walker B; other site 1150469002829 D-loop; other site 1150469002830 H-loop/switch region; other site 1150469002831 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1150469002832 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 1150469002833 Mg2+ binding site [ion binding]; other site 1150469002834 G-X-G motif; other site 1150469002835 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 1150469002836 anchoring element; other site 1150469002837 dimer interface [polypeptide binding]; other site 1150469002838 ATP binding site [chemical binding]; other site 1150469002839 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 1150469002840 active site 1150469002841 putative metal-binding site [ion binding]; other site 1150469002842 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1150469002843 Cache domain; Region: Cache_1; pfam02743 1150469002844 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 1150469002845 dimerization interface [polypeptide binding]; other site 1150469002846 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469002847 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469002848 dimer interface [polypeptide binding]; other site 1150469002849 putative CheW interface [polypeptide binding]; other site 1150469002850 NnrS protein; Region: NnrS; pfam05940 1150469002851 NnrS protein; Region: NnrS; pfam05940 1150469002852 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469002853 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1150469002854 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 1150469002855 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1150469002856 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 1150469002857 ATP binding site [chemical binding]; other site 1150469002858 Mg2+ binding site [ion binding]; other site 1150469002859 G-X-G motif; other site 1150469002860 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1150469002861 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 1150469002862 hinge; other site 1150469002863 active site 1150469002864 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 1150469002865 thiamine pyrophosphate protein; Validated; Region: PRK08199 1150469002866 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1150469002867 PYR/PP interface [polypeptide binding]; other site 1150469002868 dimer interface [polypeptide binding]; other site 1150469002869 TPP binding site [chemical binding]; other site 1150469002870 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1150469002871 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 1150469002872 TPP-binding site [chemical binding]; other site 1150469002873 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1150469002874 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 1150469002875 putative active site [active] 1150469002876 heme pocket [chemical binding]; other site 1150469002877 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 1150469002878 dimer interface [polypeptide binding]; other site 1150469002879 phosphorylation site [posttranslational modification] 1150469002880 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 1150469002881 ATP binding site [chemical binding]; other site 1150469002882 Mg2+ binding site [ion binding]; other site 1150469002883 G-X-G motif; other site 1150469002884 Response regulator receiver domain; Region: Response_reg; pfam00072 1150469002885 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 1150469002886 active site 1150469002887 phosphorylation site [posttranslational modification] 1150469002888 intermolecular recognition site; other site 1150469002889 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1150469002890 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1150469002891 metal binding site [ion binding]; metal-binding site 1150469002892 dimer interface [polypeptide binding]; other site 1150469002893 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1150469002894 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1150469002895 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 1150469002896 trimer interface [polypeptide binding]; other site 1150469002897 active site 1150469002898 substrate binding site [chemical binding]; other site 1150469002899 CoA binding site [chemical binding]; other site 1150469002900 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 1150469002901 active site 1150469002902 prephenate dehydratase; Provisional; Region: PRK11899 1150469002903 Prephenate dehydratase; Region: PDT; pfam00800 1150469002904 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 1150469002905 putative L-Phe binding site [chemical binding]; other site 1150469002906 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1150469002907 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1150469002908 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1150469002909 PAS domain; Region: PAS_8; pfam13188 1150469002910 putative active site [active] 1150469002911 heme pocket [chemical binding]; other site 1150469002912 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 1150469002913 dimer interface [polypeptide binding]; other site 1150469002914 phosphorylation site [posttranslational modification] 1150469002915 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 1150469002916 ATP binding site [chemical binding]; other site 1150469002917 Mg2+ binding site [ion binding]; other site 1150469002918 G-X-G motif; other site 1150469002919 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1150469002920 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 1150469002921 ATP binding site [chemical binding]; other site 1150469002922 putative Mg++ binding site [ion binding]; other site 1150469002923 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1150469002924 SEC-C motif; Region: SEC-C; pfam02810 1150469002925 contig_113 1150469002926 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1150469002927 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1150469002928 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1150469002929 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1150469002930 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1150469002931 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1150469002932 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1150469002933 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1150469002934 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1150469002935 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1150469002936 ligand binding site [chemical binding]; other site 1150469002937 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1150469002938 flagellar motor stator protein MotA; Region: MotA1; TIGR03818 1150469002939 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1150469002940 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1150469002941 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1150469002942 NAD(P) binding site [chemical binding]; other site 1150469002943 catalytic residues [active] 1150469002944 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1150469002945 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1150469002946 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1150469002947 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 1150469002948 putative active site [active] 1150469002949 heme pocket [chemical binding]; other site 1150469002950 LytTr DNA-binding domain; Region: LytTR; smart00850 1150469002951 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 1150469002952 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 1150469002953 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1150469002954 catalytic residue [active] 1150469002955 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1150469002956 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1150469002957 metal binding site [ion binding]; metal-binding site 1150469002958 putative dimer interface [polypeptide binding]; other site 1150469002959 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1150469002960 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 1150469002961 ATP binding site [chemical binding]; other site 1150469002962 putative Mg++ binding site [ion binding]; other site 1150469002963 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 1150469002964 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1150469002965 contig_75 1150469002966 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 1150469002967 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 1150469002968 ATP binding site [chemical binding]; other site 1150469002969 putative Mg++ binding site [ion binding]; other site 1150469002970 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 1150469002971 contig_141 1150469002972 Thioredoxin; Region: Thioredoxin_4; pfam13462 1150469002973 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1150469002974 contig_111 1150469002975 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 1150469002976 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1150469002977 ligand binding site [chemical binding]; other site 1150469002978 flexible hinge region; other site 1150469002979 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1150469002980 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 1150469002981 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1150469002982 N-terminal domain interface [polypeptide binding]; other site 1150469002983 dimer interface [polypeptide binding]; other site 1150469002984 substrate binding pocket (H-site) [chemical binding]; other site 1150469002985 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1150469002986 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 1150469002987 protein binding site [polypeptide binding]; other site 1150469002988 Transglycosylase; Region: Transgly; cl17702 1150469002989 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1150469002990 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1150469002991 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1150469002992 ligand binding site [chemical binding]; other site 1150469002993 PAS domain S-box; Region: sensory_box; TIGR00229 1150469002994 PAS domain; Region: PAS; smart00091 1150469002995 PAS domain; Region: PAS; smart00091 1150469002996 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1150469002997 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 1150469002998 dimer interface [polypeptide binding]; other site 1150469002999 phosphorylation site [posttranslational modification] 1150469003000 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 1150469003001 ATP binding site [chemical binding]; other site 1150469003002 Mg2+ binding site [ion binding]; other site 1150469003003 G-X-G motif; other site 1150469003004 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1150469003005 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 1150469003006 substrate binding pocket [chemical binding]; other site 1150469003007 membrane-bound complex binding site; other site 1150469003008 hinge residues; other site 1150469003009 contig_120 1150469003010 Thioesterase-like superfamily; Region: 4HBT_2; pfam13279 1150469003011 short chain dehydrogenase; Provisional; Region: PRK08278 1150469003012 human hydroxysteroid dehydrogenase-like protein 2 (HSDL2), classical (c) SDRs; Region: HSDL2_SDR_c; cd09762 1150469003013 NAD(P) binding site [chemical binding]; other site 1150469003014 homodimer interface [polypeptide binding]; other site 1150469003015 active site 1150469003016 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 1150469003017 DNA binding residues [nucleotide binding] 1150469003018 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1150469003019 dimer interface [polypeptide binding]; other site 1150469003020 putative metal binding site [ion binding]; other site 1150469003021 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 1150469003022 metal-binding site [ion binding] 1150469003023 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 1150469003024 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1150469003025 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1150469003026 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1150469003027 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1150469003028 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 1150469003029 oligomer interface [polypeptide binding]; other site 1150469003030 metal binding site [ion binding]; metal-binding site 1150469003031 metal binding site [ion binding]; metal-binding site 1150469003032 putative Cl binding site [ion binding]; other site 1150469003033 basic sphincter; other site 1150469003034 hydrophobic gate; other site 1150469003035 periplasmic entrance; other site 1150469003036 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1150469003037 beta-galactosidase; Region: BGL; TIGR03356 1150469003038 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1150469003039 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1150469003040 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469003041 Walker A/P-loop; other site 1150469003042 ATP binding site [chemical binding]; other site 1150469003043 Q-loop/lid; other site 1150469003044 ABC transporter signature motif; other site 1150469003045 Walker B; other site 1150469003046 D-loop; other site 1150469003047 H-loop/switch region; other site 1150469003048 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 1150469003049 dimerization interface [polypeptide binding]; other site 1150469003050 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469003051 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469003052 dimer interface [polypeptide binding]; other site 1150469003053 putative CheW interface [polypeptide binding]; other site 1150469003054 contig_118 1150469003055 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 1150469003056 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1150469003057 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 1150469003058 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1150469003059 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 1150469003060 active site 1150469003061 dimer interface [polypeptide binding]; other site 1150469003062 motif 1; other site 1150469003063 motif 2; other site 1150469003064 motif 3; other site 1150469003065 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 1150469003066 anticodon binding site; other site 1150469003067 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1150469003068 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1150469003069 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1150469003070 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1150469003071 FAD binding domain; Region: FAD_binding_4; pfam01565 1150469003072 contig_134 1150469003073 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 1150469003074 IHF dimer interface [polypeptide binding]; other site 1150469003075 IHF - DNA interface [nucleotide binding]; other site 1150469003076 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1150469003077 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 1150469003078 dimer interface [polypeptide binding]; other site 1150469003079 active site 1150469003080 CoA binding pocket [chemical binding]; other site 1150469003081 putative phosphate acyltransferase; Provisional; Region: PRK05331 1150469003082 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 1150469003083 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; cl12045 1150469003084 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1150469003085 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1150469003086 vacuolar-type H(+)-translocating pyrophosphatase; Region: V_PPase; TIGR01104 1150469003087 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 1150469003088 thiamine monophosphate kinase; Provisional; Region: PRK05731 1150469003089 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 1150469003090 ATP binding site [chemical binding]; other site 1150469003091 dimerization interface [polypeptide binding]; other site 1150469003092 transcription antitermination factor NusB; Region: nusB; TIGR01951 1150469003093 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 1150469003094 homopentamer interface [polypeptide binding]; other site 1150469003095 active site 1150469003096 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1150469003097 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1150469003098 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1150469003099 dimerization interface [polypeptide binding]; other site 1150469003100 active site 1150469003101 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1150469003102 Lumazine binding domain; Region: Lum_binding; pfam00677 1150469003103 Lumazine binding domain; Region: Lum_binding; pfam00677 1150469003104 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1150469003105 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 1150469003106 catalytic motif [active] 1150469003107 Zn binding site [ion binding]; other site 1150469003108 RibD C-terminal domain; Region: RibD_C; cl17279 1150469003109 contig_135 1150469003110 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 1150469003111 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1150469003112 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1150469003113 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 1150469003114 RNA binding site [nucleotide binding]; other site 1150469003115 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 1150469003116 multimer interface [polypeptide binding]; other site 1150469003117 Walker A motif; other site 1150469003118 ATP binding site [chemical binding]; other site 1150469003119 Walker B motif; other site 1150469003120 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 1150469003121 ferrochelatase; Reviewed; Region: hemH; PRK00035 1150469003122 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 1150469003123 C-terminal domain interface [polypeptide binding]; other site 1150469003124 active site 1150469003125 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 1150469003126 active site 1150469003127 N-terminal domain interface [polypeptide binding]; other site 1150469003128 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1150469003129 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 1150469003130 substrate binding site [chemical binding]; other site 1150469003131 active site 1150469003132 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1150469003133 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 1150469003134 active site 1150469003135 dimer interface [polypeptide binding]; other site 1150469003136 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1150469003137 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1150469003138 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1150469003139 shikimate binding site; other site 1150469003140 NAD(P) binding site [chemical binding]; other site 1150469003141 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1150469003142 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 1150469003143 CoA-binding site [chemical binding]; other site 1150469003144 ATP-binding [chemical binding]; other site 1150469003145 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 1150469003146 active site 1150469003147 catalytic site [active] 1150469003148 substrate binding site [chemical binding]; other site 1150469003149 contig_128 1150469003150 OmpA family; Region: OmpA; pfam00691 1150469003151 ligand binding site [chemical binding]; other site 1150469003152 hypothetical protein; Validated; Region: PRK09039 1150469003153 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1150469003154 ligand binding site [chemical binding]; other site 1150469003155 ribosomal protein L31; Region: L31; TIGR00105 1150469003156 cyclase homology domain; Region: CHD; cd07302 1150469003157 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1150469003158 nucleotidyl binding site; other site 1150469003159 metal binding site [ion binding]; metal-binding site 1150469003160 dimer interface [polypeptide binding]; other site 1150469003161 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1150469003162 Bacterial SH3 domain; Region: SH3_4; pfam06347 1150469003163 Bacterial SH3 domain; Region: SH3_4; pfam06347 1150469003164 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1150469003165 metal binding site 2 [ion binding]; metal-binding site 1150469003166 putative DNA binding helix; other site 1150469003167 metal binding site 1 [ion binding]; metal-binding site 1150469003168 dimer interface [polypeptide binding]; other site 1150469003169 structural Zn2+ binding site [ion binding]; other site 1150469003170 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1150469003171 FMN binding site [chemical binding]; other site 1150469003172 substrate binding site [chemical binding]; other site 1150469003173 putative catalytic residue [active] 1150469003174 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 1150469003175 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1150469003176 active site 1150469003177 catalytic site [active] 1150469003178 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1150469003179 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1150469003180 RNase E interface [polypeptide binding]; other site 1150469003181 trimer interface [polypeptide binding]; other site 1150469003182 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1150469003183 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1150469003184 RNase E interface [polypeptide binding]; other site 1150469003185 trimer interface [polypeptide binding]; other site 1150469003186 active site 1150469003187 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 1150469003188 putative nucleic acid binding region [nucleotide binding]; other site 1150469003189 G-X-X-G motif; other site 1150469003190 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 1150469003191 RNA binding site [nucleotide binding]; other site 1150469003192 domain interface; other site 1150469003193 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 1150469003194 16S/18S rRNA binding site [nucleotide binding]; other site 1150469003195 S13e-L30e interaction site [polypeptide binding]; other site 1150469003196 25S rRNA binding site [nucleotide binding]; other site 1150469003197 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 1150469003198 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1150469003199 RNA binding site [nucleotide binding]; other site 1150469003200 active site 1150469003201 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1150469003202 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1150469003203 translation initiation factor IF-2; Validated; Region: infB; PRK05306 1150469003204 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1150469003205 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1150469003206 G1 box; other site 1150469003207 putative GEF interaction site [polypeptide binding]; other site 1150469003208 GTP/Mg2+ binding site [chemical binding]; other site 1150469003209 Switch I region; other site 1150469003210 G2 box; other site 1150469003211 G3 box; other site 1150469003212 Switch II region; other site 1150469003213 G4 box; other site 1150469003214 G5 box; other site 1150469003215 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 1150469003216 Translation-initiation factor 2; Region: IF-2; pfam11987 1150469003217 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 1150469003218 hypothetical protein; Provisional; Region: PRK09190 1150469003219 Protein of unknown function (DUF448); Region: DUF448; pfam04296 1150469003220 putative RNA binding cleft [nucleotide binding]; other site 1150469003221 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1150469003222 NusA N-terminal domain; Region: NusA_N; pfam08529 1150469003223 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 1150469003224 RNA binding site [nucleotide binding]; other site 1150469003225 homodimer interface [polypeptide binding]; other site 1150469003226 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 1150469003227 G-X-X-G motif; other site 1150469003228 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 1150469003229 G-X-X-G motif; other site 1150469003230 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1150469003231 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1150469003232 Sm and related proteins; Region: Sm_like; cl00259 1150469003233 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1150469003234 putative oligomer interface [polypeptide binding]; other site 1150469003235 putative RNA binding site [nucleotide binding]; other site 1150469003236 contig_131 1150469003237 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1150469003238 MgtE intracellular N domain; Region: MgtE_N; cl15244 1150469003239 FliG C-terminal domain; Region: FliG_C; pfam01706 1150469003240 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1150469003241 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1150469003242 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1150469003243 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1150469003244 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1150469003245 HlyD family secretion protein; Region: HlyD_3; pfam13437 1150469003246 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1150469003247 Protein export membrane protein; Region: SecD_SecF; cl14618 1150469003248 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 1150469003249 active site 1150469003250 multimer interface [polypeptide binding]; other site 1150469003251 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1150469003252 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1150469003253 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1150469003254 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 1150469003255 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 1150469003256 Peptidase family M48; Region: Peptidase_M48; cl12018 1150469003257 Peptidase family M48; Region: Peptidase_M48; cl12018 1150469003258 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1150469003259 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 1150469003260 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1150469003261 DNA-binding site [nucleotide binding]; DNA binding site 1150469003262 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 1150469003263 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1150469003264 homodimer interface [polypeptide binding]; other site 1150469003265 catalytic residue [active] 1150469003266 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 1150469003267 contig_67 1150469003268 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1150469003269 ATP binding site [chemical binding]; other site 1150469003270 Mg2+ binding site [ion binding]; other site 1150469003271 G-X-G motif; other site 1150469003272 flavodoxin FldA; Validated; Region: PRK09267 1150469003273 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 1150469003274 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 1150469003275 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1150469003276 putative active site [active] 1150469003277 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 1150469003278 dimer interface [polypeptide binding]; other site 1150469003279 phosphorylation site [posttranslational modification] 1150469003280 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 1150469003281 ATP binding site [chemical binding]; other site 1150469003282 Mg2+ binding site [ion binding]; other site 1150469003283 G-X-G motif; other site 1150469003284 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 1150469003285 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1150469003286 NAD(P) binding site [chemical binding]; other site 1150469003287 catalytic residues [active] 1150469003288 trigger factor; Provisional; Region: tig; PRK01490 1150469003289 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1150469003290 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1150469003291 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1150469003292 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1150469003293 oligomer interface [polypeptide binding]; other site 1150469003294 active site residues [active] 1150469003295 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1150469003296 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1150469003297 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 1150469003298 Walker A motif; other site 1150469003299 ATP binding site [chemical binding]; other site 1150469003300 Walker B motif; other site 1150469003301 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1150469003302 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1150469003303 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1150469003304 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1150469003305 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 1150469003306 Walker A motif; other site 1150469003307 ATP binding site [chemical binding]; other site 1150469003308 Walker B motif; other site 1150469003309 arginine finger; other site 1150469003310 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1150469003311 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 1150469003312 IHF dimer interface [polypeptide binding]; other site 1150469003313 IHF - DNA interface [nucleotide binding]; other site 1150469003314 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 1150469003315 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 1150469003316 HSP70 interaction site [polypeptide binding]; other site 1150469003317 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1150469003318 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1150469003319 FtsX-like permease family; Region: FtsX; pfam02687 1150469003320 contig_129 1150469003321 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 1150469003322 Cell division protein ZapA; Region: ZapA; pfam05164 1150469003323 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 1150469003324 trimer interface [polypeptide binding]; other site 1150469003325 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1150469003326 active site 1150469003327 dimer interface [polypeptide binding]; other site 1150469003328 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1150469003329 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 1150469003330 carboxyltransferase (CT) interaction site; other site 1150469003331 biotinylation site [posttranslational modification]; other site 1150469003332 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1150469003333 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1150469003334 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1150469003335 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1150469003336 contig_96 1150469003337 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1150469003338 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1150469003339 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 1150469003340 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1150469003341 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1150469003342 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1150469003343 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 1150469003344 Phosphoglycerate kinase; Region: PGK; pfam00162 1150469003345 substrate binding site [chemical binding]; other site 1150469003346 hinge regions; other site 1150469003347 ADP binding site [chemical binding]; other site 1150469003348 catalytic site [active] 1150469003349 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1150469003350 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 1150469003351 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1150469003352 catalytic residue [active] 1150469003353 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 1150469003354 dimerization interface [polypeptide binding]; other site 1150469003355 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469003356 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469003357 dimer interface [polypeptide binding]; other site 1150469003358 putative CheW interface [polypeptide binding]; other site 1150469003359 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1150469003360 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 1150469003361 active site 1150469003362 phosphorylation site [posttranslational modification] 1150469003363 intermolecular recognition site; other site 1150469003364 dimerization interface [polypeptide binding]; other site 1150469003365 CheB methylesterase; Region: CheB_methylest; pfam01339 1150469003366 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1150469003367 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 1150469003368 S-adenosylmethionine binding site [chemical binding]; other site 1150469003369 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 1150469003370 binding surface 1150469003371 TPR motif; other site 1150469003372 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 1150469003373 putative binding surface; other site 1150469003374 active site 1150469003375 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1150469003376 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 1150469003377 ATP binding site [chemical binding]; other site 1150469003378 Mg2+ binding site [ion binding]; other site 1150469003379 G-X-G motif; other site 1150469003380 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 1150469003381 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1150469003382 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 1150469003383 active site 1150469003384 phosphorylation site [posttranslational modification] 1150469003385 intermolecular recognition site; other site 1150469003386 dimerization interface [polypeptide binding]; other site 1150469003387 Response regulator receiver domain; Region: Response_reg; pfam00072 1150469003388 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 1150469003389 active site 1150469003390 phosphorylation site [posttranslational modification] 1150469003391 intermolecular recognition site; other site 1150469003392 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 1150469003393 putative binding surface; other site 1150469003394 active site 1150469003395 Response regulator receiver domain; Region: Response_reg; pfam00072 1150469003396 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 1150469003397 active site 1150469003398 phosphorylation site [posttranslational modification] 1150469003399 intermolecular recognition site; other site 1150469003400 dimerization interface [polypeptide binding]; other site 1150469003401 Response regulator receiver domain; Region: Response_reg; pfam00072 1150469003402 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 1150469003403 active site 1150469003404 phosphorylation site [posttranslational modification] 1150469003405 intermolecular recognition site; other site 1150469003406 dimerization interface [polypeptide binding]; other site 1150469003407 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469003408 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469003409 metal binding site [ion binding]; metal-binding site 1150469003410 active site 1150469003411 I-site; other site 1150469003412 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1150469003413 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1150469003414 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1150469003415 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 1150469003416 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 1150469003417 EF-hand domain pair; Region: EF_hand_5; pfam13499 1150469003418 Ca2+ binding site [ion binding]; other site 1150469003419 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 1150469003420 EF-hand domain pair; Region: EF_hand_5; pfam13499 1150469003421 Ca2+ binding site [ion binding]; other site 1150469003422 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1150469003423 sorbitol-6-phosphate 2-dehydrogenase; Provisional; Region: PRK06171 1150469003424 NAD(P) binding site [chemical binding]; other site 1150469003425 active site 1150469003426 Protein of unknown function (DUF1192); Region: DUF1192; pfam06698 1150469003427 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1150469003428 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1150469003429 NAD(P) binding site [chemical binding]; other site 1150469003430 Protein of unknown function (DUF1013); Region: DUF1013; pfam06242 1150469003431 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 1150469003432 phosphorylation site [posttranslational modification] 1150469003433 intermolecular recognition site; other site 1150469003434 phosphoribosylaminoimidazole carboxylase, PurK protein; Region: purK; TIGR01161 1150469003435 ATP-grasp domain; Region: ATP-grasp; pfam02222 1150469003436 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1150469003437 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1150469003438 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 1150469003439 NAD binding site [chemical binding]; other site 1150469003440 putative substrate binding site 2 [chemical binding]; other site 1150469003441 putative substrate binding site 1 [chemical binding]; other site 1150469003442 active site 1150469003443 6-phosphofructokinase; Provisional; Region: PRK14071 1150469003444 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1150469003445 active site 1150469003446 ADP/pyrophosphate binding site [chemical binding]; other site 1150469003447 dimerization interface [polypeptide binding]; other site 1150469003448 allosteric effector site; other site 1150469003449 fructose-1,6-bisphosphate binding site; other site 1150469003450 Protein of unknown function (DUF465); Region: DUF465; pfam04325 1150469003451 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1150469003452 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 1150469003453 acyl-activating enzyme (AAE) consensus motif; other site 1150469003454 putative AMP binding site [chemical binding]; other site 1150469003455 putative active site [active] 1150469003456 putative CoA binding site [chemical binding]; other site 1150469003457 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 1150469003458 Fe-S cluster binding site [ion binding]; other site 1150469003459 DNA binding site [nucleotide binding] 1150469003460 active site 1150469003461 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1150469003462 LabA_like proteins; Region: LabA; cd10911 1150469003463 putative metal binding site [ion binding]; other site 1150469003464 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 1150469003465 catalytic center binding site [active] 1150469003466 ATP binding site [chemical binding]; other site 1150469003467 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1150469003468 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1150469003469 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1150469003470 Zn2+ binding site [ion binding]; other site 1150469003471 Mg2+ binding site [ion binding]; other site 1150469003472 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1150469003473 synthetase active site [active] 1150469003474 NTP binding site [chemical binding]; other site 1150469003475 metal binding site [ion binding]; metal-binding site 1150469003476 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 1150469003477 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1150469003478 contig_77 1150469003479 GTP-binding protein LepA; Provisional; Region: PRK05433 1150469003480 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1150469003481 G1 box; other site 1150469003482 putative GEF interaction site [polypeptide binding]; other site 1150469003483 GTP/Mg2+ binding site [chemical binding]; other site 1150469003484 Switch I region; other site 1150469003485 G2 box; other site 1150469003486 G3 box; other site 1150469003487 Switch II region; other site 1150469003488 G4 box; other site 1150469003489 G5 box; other site 1150469003490 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 1150469003491 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 1150469003492 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1150469003493 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 1150469003494 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 1150469003495 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1150469003496 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1150469003497 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1150469003498 TSCPD domain; Region: TSCPD; pfam12637 1150469003499 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469003500 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469003501 dimer interface [polypeptide binding]; other site 1150469003502 putative CheW interface [polypeptide binding]; other site 1150469003503 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 1150469003504 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 1150469003505 S-adenosylmethionine binding site [chemical binding]; other site 1150469003506 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1150469003507 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1150469003508 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 1150469003509 active site 1150469003510 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1150469003511 MOFRL family; Region: MOFRL; pfam05161 1150469003512 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 1150469003513 isocitrate dehydrogenase; Validated; Region: PRK08299 1150469003514 Chitin/cellulose binding domains of chitinase and related enzymes; Region: ChtBD3; cl00046 1150469003515 aromatic chitin/cellulose binding site residues [chemical binding]; other site 1150469003516 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 1150469003517 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1150469003518 glycogen debranching enzyme; Provisional; Region: PRK03705 1150469003519 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 1150469003520 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1150469003521 active site 1150469003522 catalytic site [active] 1150469003523 glycogen branching enzyme; Provisional; Region: PRK05402 1150469003524 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1150469003525 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1150469003526 active site 1150469003527 catalytic site [active] 1150469003528 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1150469003529 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 1150469003530 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 1150469003531 Transcriptional regulator; Region: Rrf2; pfam02082 1150469003532 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1150469003533 putative ABC transporter; Region: ycf24; CHL00085 1150469003534 FeS assembly ATPase SufC; Region: sufC; TIGR01978 1150469003535 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1150469003536 Walker A/P-loop; other site 1150469003537 ATP binding site [chemical binding]; other site 1150469003538 Q-loop/lid; other site 1150469003539 ABC transporter signature motif; other site 1150469003540 Walker B; other site 1150469003541 D-loop; other site 1150469003542 H-loop/switch region; other site 1150469003543 FeS assembly protein SufD; Region: sufD; TIGR01981 1150469003544 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 1150469003545 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1150469003546 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 1150469003547 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1150469003548 catalytic residue [active] 1150469003549 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 1150469003550 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 1150469003551 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 1150469003552 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_b; cd00914 1150469003553 aromatic arch; other site 1150469003554 DCoH dimer interaction site [polypeptide binding]; other site 1150469003555 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1150469003556 DCoH tetramer interaction site [polypeptide binding]; other site 1150469003557 substrate binding site [chemical binding]; other site 1150469003558 aromatic amino acid exporter; Provisional; Region: PRK11689 1150469003559 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1150469003560 DDE superfamily endonuclease; Region: DDE_4; cl17710 1150469003561 contig_140 1150469003562 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 1150469003563 HSP70 interaction site [polypeptide binding]; other site 1150469003564 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 1150469003565 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 1150469003566 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 1150469003567 contig_114 1150469003568 GTP cyclohydrolase; Provisional; Region: PRK08815 1150469003569 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 1150469003570 dimerization interface [polypeptide binding]; other site 1150469003571 active site 1150469003572 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1150469003573 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 1150469003574 intermolecular recognition site; other site 1150469003575 active site 1150469003576 dimerization interface [polypeptide binding]; other site 1150469003577 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 1150469003578 DNA binding site [nucleotide binding] 1150469003579 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1150469003580 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 1150469003581 purine monophosphate binding site [chemical binding]; other site 1150469003582 dimer interface [polypeptide binding]; other site 1150469003583 putative catalytic residues [active] 1150469003584 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1150469003585 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1150469003586 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1150469003587 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1150469003588 putative NAD(P) binding site [chemical binding]; other site 1150469003589 dimer interface [polypeptide binding]; other site 1150469003590 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1150469003591 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 1150469003592 Walker A motif; other site 1150469003593 ATP binding site [chemical binding]; other site 1150469003594 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1150469003595 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1150469003596 ATP-dependent protease subunit HslV; Provisional; Region: PRK05456 1150469003597 active site 1150469003598 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1150469003599 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 1150469003600 sequence-specific DNA binding site [nucleotide binding]; other site 1150469003601 salt bridge; other site 1150469003602 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1150469003603 4-fold oligomerization interface [polypeptide binding]; other site 1150469003604 putative active site pocket [active] 1150469003605 metal binding residues [ion binding]; metal-binding site 1150469003606 3-fold/trimer interface [polypeptide binding]; other site 1150469003607 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1150469003608 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1150469003609 putative active site [active] 1150469003610 oxyanion strand; other site 1150469003611 catalytic triad [active] 1150469003612 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 1150469003613 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 1150469003614 catalytic residues [active] 1150469003615 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 1150469003616 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1150469003617 substrate binding site [chemical binding]; other site 1150469003618 glutamase interaction surface [polypeptide binding]; other site 1150469003619 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 1150469003620 metal binding site [ion binding]; metal-binding site 1150469003621 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 1150469003622 nucleotide binding site/active site [active] 1150469003623 HIT family signature motif; other site 1150469003624 catalytic residue [active] 1150469003625 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 1150469003626 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 1150469003627 acyl-activating enzyme (AAE) consensus motif; other site 1150469003628 putative AMP binding site [chemical binding]; other site 1150469003629 putative active site [active] 1150469003630 putative CoA binding site [chemical binding]; other site 1150469003631 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1150469003632 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 1150469003633 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1150469003634 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 1150469003635 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 1150469003636 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 1150469003637 active site 1150469003638 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 1150469003639 PAS domain; Region: PAS_9; pfam13426 1150469003640 putative active site [active] 1150469003641 heme pocket [chemical binding]; other site 1150469003642 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469003643 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469003644 metal binding site [ion binding]; metal-binding site 1150469003645 active site 1150469003646 I-site; other site 1150469003647 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 1150469003648 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1150469003649 ParB-like nuclease domain; Region: ParB; smart00470 1150469003650 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1150469003651 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 1150469003652 P-loop; other site 1150469003653 Magnesium ion binding site [ion binding]; other site 1150469003654 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 1150469003655 Magnesium ion binding site [ion binding]; other site 1150469003656 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1150469003657 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1150469003658 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1150469003659 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1150469003660 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1150469003661 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1150469003662 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1150469003663 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1150469003664 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1150469003665 G1 box; other site 1150469003666 GTP/Mg2+ binding site [chemical binding]; other site 1150469003667 Switch I region; other site 1150469003668 G2 box; other site 1150469003669 Switch II region; other site 1150469003670 G3 box; other site 1150469003671 G4 box; other site 1150469003672 G5 box; other site 1150469003673 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1150469003674 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 1150469003675 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 1150469003676 catalytic residues [active] 1150469003677 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 1150469003678 active site 1150469003679 zinc binding site [ion binding]; other site 1150469003680 Predicted integral membrane protein [Function unknown]; Region: COG0392 1150469003681 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1150469003682 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1150469003683 contig_130 1150469003684 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 1150469003685 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1150469003686 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 1150469003687 motif II; other site 1150469003688 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 1150469003689 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1150469003690 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1150469003691 Cache domain; Region: Cache_1; pfam02743 1150469003692 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 1150469003693 dimerization interface [polypeptide binding]; other site 1150469003694 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469003695 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469003696 dimer interface [polypeptide binding]; other site 1150469003697 putative CheW interface [polypeptide binding]; other site 1150469003698 NMT1/THI5 like; Region: NMT1; pfam09084 1150469003699 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; cl17432 1150469003700 PAS domain S-box; Region: sensory_box; TIGR00229 1150469003701 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 1150469003702 putative active site [active] 1150469003703 heme pocket [chemical binding]; other site 1150469003704 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469003705 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469003706 metal binding site [ion binding]; metal-binding site 1150469003707 active site 1150469003708 I-site; other site 1150469003709 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 1150469003710 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1150469003711 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 1150469003712 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 1150469003713 active site 1150469003714 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 1150469003715 malonyl-CoA synthase; Validated; Region: PRK07514 1150469003716 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 1150469003717 acyl-activating enzyme (AAE) consensus motif; other site 1150469003718 active site 1150469003719 AMP binding site [chemical binding]; other site 1150469003720 CoA binding site [chemical binding]; other site 1150469003721 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1150469003722 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1150469003723 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1150469003724 contig_243 1150469003725 contig_94 1150469003726 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1150469003727 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 1150469003728 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 1150469003729 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1150469003730 substrate binding site [chemical binding]; other site 1150469003731 ATP binding site [chemical binding]; other site 1150469003732 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1150469003733 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1150469003734 G1 box; other site 1150469003735 putative GEF interaction site [polypeptide binding]; other site 1150469003736 GTP/Mg2+ binding site [chemical binding]; other site 1150469003737 Switch I region; other site 1150469003738 G2 box; other site 1150469003739 G3 box; other site 1150469003740 Switch II region; other site 1150469003741 G4 box; other site 1150469003742 G5 box; other site 1150469003743 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 1150469003744 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 1150469003745 muropeptide transporter; Validated; Region: ampG; cl17669 1150469003746 muropeptide transporter; Validated; Region: ampG; cl17669 1150469003747 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 1150469003748 dimer interface [polypeptide binding]; other site 1150469003749 substrate binding site [chemical binding]; other site 1150469003750 metal binding sites [ion binding]; metal-binding site 1150469003751 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 1150469003752 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 1150469003753 PGAP1-like protein; Region: PGAP1; pfam07819 1150469003754 acyl-CoA esterase; Provisional; Region: PRK10673 1150469003755 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 1150469003756 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1150469003757 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 1150469003758 S-adenosylmethionine binding site [chemical binding]; other site 1150469003759 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1150469003760 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 1150469003761 SurA N-terminal domain; Region: SurA_N; pfam09312 1150469003762 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1150469003763 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1150469003764 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1150469003765 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1150469003766 contig_90 1150469003767 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1150469003768 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1150469003769 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 1150469003770 putative NADP binding site [chemical binding]; other site 1150469003771 KR domain; Region: KR; pfam08659 1150469003772 active site 1150469003773 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1150469003774 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 1150469003775 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 1150469003776 dimer interface [polypeptide binding]; other site 1150469003777 active site 1150469003778 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 1150469003779 dimerization interface [polypeptide binding]; other site 1150469003780 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469003781 dimer interface [polypeptide binding]; other site 1150469003782 putative CheW interface [polypeptide binding]; other site 1150469003783 contig_133 1150469003784 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 1150469003785 oxidoreductase; Provisional; Region: PRK10015 1150469003786 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1150469003787 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 1150469003788 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1150469003789 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 1150469003790 Ligand binding site [chemical binding]; other site 1150469003791 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1150469003792 Nitrogen fixation protein NifW; Region: NifW; pfam03206 1150469003793 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 1150469003794 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 1150469003795 active site 1150469003796 catalytic residues [active] 1150469003797 metal binding site [ion binding]; metal-binding site 1150469003798 NifU-like domain; Region: NifU; cl00484 1150469003799 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1150469003800 heat shock protein HtpX; Provisional; Region: PRK01345 1150469003801 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 1150469003802 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1150469003803 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1150469003804 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1150469003805 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1150469003806 HlyD family secretion protein; Region: HlyD_3; pfam13437 1150469003807 multidrug efflux protein; Reviewed; Region: PRK09579 1150469003808 Protein export membrane protein; Region: SecD_SecF; cl14618 1150469003809 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1150469003810 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1150469003811 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1150469003812 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1150469003813 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1150469003814 contig_97 1150469003815 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1150469003816 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 1150469003817 acyl-activating enzyme (AAE) consensus motif; other site 1150469003818 AMP binding site [chemical binding]; other site 1150469003819 active site 1150469003820 CoA binding site [chemical binding]; other site 1150469003821 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1150469003822 Protein export membrane protein; Region: SecD_SecF; cl14618 1150469003823 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1150469003824 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1150469003825 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1150469003826 HlyD family secretion protein; Region: HlyD_3; pfam13437 1150469003827 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1150469003828 DNA protecting protein DprA; Region: dprA; TIGR00732 1150469003829 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1150469003830 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 1150469003831 active site 1150469003832 interdomain interaction site; other site 1150469003833 putative metal-binding site [ion binding]; other site 1150469003834 nucleotide binding site [chemical binding]; other site 1150469003835 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 1150469003836 domain I; other site 1150469003837 DNA binding groove [nucleotide binding] 1150469003838 phosphate binding site [ion binding]; other site 1150469003839 domain II; other site 1150469003840 domain III; other site 1150469003841 nucleotide binding site [chemical binding]; other site 1150469003842 catalytic site [active] 1150469003843 domain IV; other site 1150469003844 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1150469003845 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1150469003846 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1150469003847 Protein of unknown function (DUF563); Region: DUF563; pfam04577 1150469003848 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1150469003849 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1150469003850 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 1150469003851 dimerization interface [polypeptide binding]; other site 1150469003852 EamA-like transporter family; Region: EamA; pfam00892 1150469003853 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1150469003854 Response regulator receiver domain; Region: Response_reg; pfam00072 1150469003855 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 1150469003856 active site 1150469003857 phosphorylation site [posttranslational modification] 1150469003858 intermolecular recognition site; other site 1150469003859 dimerization interface [polypeptide binding]; other site 1150469003860 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1150469003861 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 1150469003862 dimer interface [polypeptide binding]; other site 1150469003863 phosphorylation site [posttranslational modification] 1150469003864 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 1150469003865 ATP binding site [chemical binding]; other site 1150469003866 Mg2+ binding site [ion binding]; other site 1150469003867 G-X-G motif; other site 1150469003868 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1150469003869 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 1150469003870 active site 1150469003871 phosphorylation site [posttranslational modification] 1150469003872 intermolecular recognition site; other site 1150469003873 dimerization interface [polypeptide binding]; other site 1150469003874 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1150469003875 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1150469003876 contig_82 1150469003877 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1150469003878 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 1150469003879 catalytic residues [active] 1150469003880 catalytic nucleophile [active] 1150469003881 Presynaptic Site I dimer interface [polypeptide binding]; other site 1150469003882 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1150469003883 Synaptic Flat tetramer interface [polypeptide binding]; other site 1150469003884 Synaptic Site I dimer interface [polypeptide binding]; other site 1150469003885 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 1150469003886 DNA-binding interface [nucleotide binding]; DNA binding site 1150469003887 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1150469003888 Coenzyme A binding pocket [chemical binding]; other site 1150469003889 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1150469003890 Glycoprotease family; Region: Peptidase_M22; pfam00814 1150469003891 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 1150469003892 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 1150469003893 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1150469003894 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1150469003895 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1150469003896 Walker A/P-loop; other site 1150469003897 ATP binding site [chemical binding]; other site 1150469003898 Q-loop/lid; other site 1150469003899 ABC transporter signature motif; other site 1150469003900 Walker B; other site 1150469003901 D-loop; other site 1150469003902 H-loop/switch region; other site 1150469003903 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1150469003904 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 1150469003905 dimer interface [polypeptide binding]; other site 1150469003906 active site 1150469003907 heme binding site [chemical binding]; other site 1150469003908 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 1150469003909 heme binding site [chemical binding]; other site 1150469003910 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1150469003911 GTP cyclohydrolase I; Provisional; Region: PLN03044 1150469003912 active site 1150469003913 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1150469003914 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1150469003915 cytochrome b; Provisional; Region: CYTB; MTH00191 1150469003916 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 1150469003917 Qi binding site; other site 1150469003918 intrachain domain interface; other site 1150469003919 interchain domain interface [polypeptide binding]; other site 1150469003920 heme bH binding site [chemical binding]; other site 1150469003921 heme bL binding site [chemical binding]; other site 1150469003922 Qo binding site; other site 1150469003923 Cytochrome b(C-terminus)/b6/petD: 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_C; cd00290 1150469003924 interchain domain interface [polypeptide binding]; other site 1150469003925 intrachain domain interface; other site 1150469003926 Qi binding site; other site 1150469003927 Qo binding site; other site 1150469003928 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 1150469003929 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1150469003930 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 1150469003931 [2Fe-2S] cluster binding site [ion binding]; other site 1150469003932 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1150469003933 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1150469003934 active site 1150469003935 NTP binding site [chemical binding]; other site 1150469003936 metal binding triad [ion binding]; metal-binding site 1150469003937 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1150469003938 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 1150469003939 putative active site [active] 1150469003940 putative CoA binding site [chemical binding]; other site 1150469003941 nudix motif; other site 1150469003942 metal binding site [ion binding]; metal-binding site 1150469003943 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 1150469003944 MoxR-like ATPases [General function prediction only]; Region: COG0714 1150469003945 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 1150469003946 Walker A motif; other site 1150469003947 ATP binding site [chemical binding]; other site 1150469003948 Walker B motif; other site 1150469003949 arginine finger; other site 1150469003950 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1150469003951 Protein of unknown function DUF58; Region: DUF58; pfam01882 1150469003952 contig_38 1150469003953 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 1150469003954 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 1150469003955 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 1150469003956 Methyltransferase domain; Region: Methyltransf_24; pfam13578 1150469003957 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 1150469003958 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 1150469003959 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1150469003960 extended (e) SDRs; Region: SDR_e; cd08946 1150469003961 NAD(P) binding site [chemical binding]; other site 1150469003962 active site 1150469003963 substrate binding site [chemical binding]; other site 1150469003964 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1150469003965 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 1150469003966 trimer interface [polypeptide binding]; other site 1150469003967 active site 1150469003968 substrate binding site [chemical binding]; other site 1150469003969 CoA binding site [chemical binding]; other site 1150469003970 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 1150469003971 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1150469003972 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 1150469003973 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 1150469003974 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 1150469003975 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1150469003976 NAD(P) binding site [chemical binding]; other site 1150469003977 active site 1150469003978 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 1150469003979 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 1150469003980 substrate binding site; other site 1150469003981 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 1150469003982 binding surface 1150469003983 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1150469003984 TPR motif; other site 1150469003985 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 1150469003986 TPR motif; other site 1150469003987 binding surface 1150469003988 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1150469003989 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 1150469003990 binding surface 1150469003991 TPR motif; other site 1150469003992 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 1150469003993 binding surface 1150469003994 TPR motif; other site 1150469003995 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 1150469003996 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 1150469003997 binding surface 1150469003998 TPR motif; other site 1150469003999 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 1150469004000 catalytic triad [active] 1150469004001 conserved cis-peptide bond; other site 1150469004002 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 1150469004003 catalytic core [active] 1150469004004 polyphosphate kinase; Provisional; Region: PRK05443 1150469004005 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1150469004006 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1150469004007 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1150469004008 putative domain interface [polypeptide binding]; other site 1150469004009 putative active site [active] 1150469004010 catalytic site [active] 1150469004011 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1150469004012 putative domain interface [polypeptide binding]; other site 1150469004013 putative active site [active] 1150469004014 catalytic site [active] 1150469004015 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1150469004016 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1150469004017 nucleotide binding site [chemical binding]; other site 1150469004018 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 1150469004019 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1150469004020 dimer interface [polypeptide binding]; other site 1150469004021 active site 1150469004022 citrylCoA binding site [chemical binding]; other site 1150469004023 NADH binding [chemical binding]; other site 1150469004024 cationic pore residues; other site 1150469004025 oxalacetate/citrate binding site [chemical binding]; other site 1150469004026 coenzyme A binding site [chemical binding]; other site 1150469004027 catalytic triad [active] 1150469004028 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1150469004029 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1150469004030 HIGH motif; other site 1150469004031 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1150469004032 active site 1150469004033 KMSKS motif; other site 1150469004034 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1150469004035 Competence protein; Region: Competence; pfam03772 1150469004036 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 1150469004037 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 1150469004038 metal binding site [ion binding]; metal-binding site 1150469004039 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 1150469004040 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469004041 Walker A/P-loop; other site 1150469004042 ATP binding site [chemical binding]; other site 1150469004043 Q-loop/lid; other site 1150469004044 ABC transporter signature motif; other site 1150469004045 Walker B; other site 1150469004046 D-loop; other site 1150469004047 H-loop/switch region; other site 1150469004048 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 1150469004049 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1150469004050 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1150469004051 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 1150469004052 FeS/SAM binding site; other site 1150469004053 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 1150469004054 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1150469004055 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1150469004056 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 1150469004057 substrate binding pocket [chemical binding]; other site 1150469004058 membrane-bound complex binding site; other site 1150469004059 hinge residues; other site 1150469004060 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1150469004061 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 1150469004062 dimer interface [polypeptide binding]; other site 1150469004063 conserved gate region; other site 1150469004064 putative PBP binding loops; other site 1150469004065 ABC-ATPase subunit interface; other site 1150469004066 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1150469004067 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1150469004068 Walker A/P-loop; other site 1150469004069 ATP binding site [chemical binding]; other site 1150469004070 Q-loop/lid; other site 1150469004071 ABC transporter signature motif; other site 1150469004072 Walker B; other site 1150469004073 D-loop; other site 1150469004074 H-loop/switch region; other site 1150469004075 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1150469004076 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1150469004077 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1150469004078 Surface antigen; Region: Bac_surface_Ag; pfam01103 1150469004079 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1150469004080 Family of unknown function (DUF490); Region: DUF490; pfam04357 1150469004081 PAS domain; Region: PAS_5; pfam07310 1150469004082 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 1150469004083 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1150469004084 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1150469004085 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1150469004086 PAS fold; Region: PAS_4; pfam08448 1150469004087 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 1150469004088 PAS domain; Region: PAS_9; pfam13426 1150469004089 putative active site [active] 1150469004090 heme pocket [chemical binding]; other site 1150469004091 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 1150469004092 dimer interface [polypeptide binding]; other site 1150469004093 phosphorylation site [posttranslational modification] 1150469004094 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 1150469004095 ATP binding site [chemical binding]; other site 1150469004096 Mg2+ binding site [ion binding]; other site 1150469004097 G-X-G motif; other site 1150469004098 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1150469004099 heme-binding site [chemical binding]; other site 1150469004100 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469004101 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469004102 dimer interface [polypeptide binding]; other site 1150469004103 putative CheW interface [polypeptide binding]; other site 1150469004104 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1150469004105 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 1150469004106 dimer interface [polypeptide binding]; other site 1150469004107 active site 1150469004108 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1150469004109 catalytic residues [active] 1150469004110 substrate binding site [chemical binding]; other site 1150469004111 S-adenosylmethionine decarboxylase proenzyme, Bacillus form; Region: SAM_DCase_Bsu; TIGR03330 1150469004112 spermidine synthase; Provisional; Region: PRK00811 1150469004113 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 1150469004114 S-adenosylmethionine binding site [chemical binding]; other site 1150469004115 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1150469004116 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 1150469004117 homodimer interface [polypeptide binding]; other site 1150469004118 metal binding site [ion binding]; metal-binding site 1150469004119 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 1150469004120 homodimer interface [polypeptide binding]; other site 1150469004121 active site 1150469004122 putative chemical substrate binding site [chemical binding]; other site 1150469004123 metal binding site [ion binding]; metal-binding site 1150469004124 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1150469004125 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 1150469004126 active site 1150469004127 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1150469004128 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1150469004129 HflX GTPase family; Region: HflX; cd01878 1150469004130 G1 box; other site 1150469004131 GTP/Mg2+ binding site [chemical binding]; other site 1150469004132 Switch I region; other site 1150469004133 G2 box; other site 1150469004134 G3 box; other site 1150469004135 Switch II region; other site 1150469004136 G4 box; other site 1150469004137 G5 box; other site 1150469004138 bacterial Hfq-like; Region: Hfq; cd01716 1150469004139 hexamer interface [polypeptide binding]; other site 1150469004140 Sm1 motif; other site 1150469004141 RNA binding site [nucleotide binding]; other site 1150469004142 Sm2 motif; other site 1150469004143 2-phosphoglycolate phosphatase, prokaryotic; Region: PGP_bact; TIGR01449 1150469004144 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 1150469004145 motif II; other site 1150469004146 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1150469004147 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 1150469004148 homodimer interface [polypeptide binding]; other site 1150469004149 substrate-cofactor binding pocket; other site 1150469004150 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1150469004151 catalytic residue [active] 1150469004152 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1150469004153 TrkA-N domain; Region: TrkA_N; pfam02254 1150469004154 TrkA-C domain; Region: TrkA_C; pfam02080 1150469004155 TrkA-N domain; Region: TrkA_N; pfam02254 1150469004156 TrkA-C domain; Region: TrkA_C; pfam02080 1150469004157 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1150469004158 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 1150469004159 active site 1150469004160 phosphorylation site [posttranslational modification] 1150469004161 intermolecular recognition site; other site 1150469004162 dimerization interface [polypeptide binding]; other site 1150469004163 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 1150469004164 Walker A motif; other site 1150469004165 ATP binding site [chemical binding]; other site 1150469004166 Walker B motif; other site 1150469004167 arginine finger; other site 1150469004168 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1150469004169 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1150469004170 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 1150469004171 dimerization interface [polypeptide binding]; other site 1150469004172 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 1150469004173 putative active site [active] 1150469004174 heme pocket [chemical binding]; other site 1150469004175 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 1150469004176 dimer interface [polypeptide binding]; other site 1150469004177 phosphorylation site [posttranslational modification] 1150469004178 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 1150469004179 ATP binding site [chemical binding]; other site 1150469004180 Mg2+ binding site [ion binding]; other site 1150469004181 G-X-G motif; other site 1150469004182 contig_84 1150469004183 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 1150469004184 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 1150469004185 Antibiotic Binding Site [chemical binding]; other site 1150469004186 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1150469004187 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1150469004188 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1150469004189 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1150469004190 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1150469004191 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1150469004192 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1150469004193 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1150469004194 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 1150469004195 protein-rRNA interface [nucleotide binding]; other site 1150469004196 putative translocon binding site; other site 1150469004197 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1150469004198 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 1150469004199 G-X-X-G motif; other site 1150469004200 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1150469004201 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 1150469004202 23S rRNA interface [nucleotide binding]; other site 1150469004203 5S rRNA interface [nucleotide binding]; other site 1150469004204 putative antibiotic binding site [chemical binding]; other site 1150469004205 L25 interface [polypeptide binding]; other site 1150469004206 L27 interface [polypeptide binding]; other site 1150469004207 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 1150469004208 putative translocon interaction site; other site 1150469004209 23S rRNA interface [nucleotide binding]; other site 1150469004210 signal recognition particle (SRP54) interaction site; other site 1150469004211 L23 interface [polypeptide binding]; other site 1150469004212 trigger factor interaction site; other site 1150469004213 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1150469004214 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1150469004215 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1150469004216 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1150469004217 RNA binding site [nucleotide binding]; other site 1150469004218 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1150469004219 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1150469004220 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1150469004221 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1150469004222 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1150469004223 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1150469004224 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1150469004226 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 1150469004227 5S rRNA interface [nucleotide binding]; other site 1150469004228 23S rRNA interface [nucleotide binding]; other site 1150469004229 L5 interface [polypeptide binding]; other site 1150469004230 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1150469004231 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1150469004232 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1150469004233 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 1150469004234 23S rRNA binding site [nucleotide binding]; other site 1150469004235 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1150469004236 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1150469004237 SecY translocase; Region: SecY; pfam00344 1150469004238 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 1150469004239 adenylate kinase; Reviewed; Region: adk; PRK00279 1150469004240 AMP-binding site [chemical binding]; other site 1150469004241 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1150469004242 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1150469004243 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1150469004244 30S ribosomal protein S11; Validated; Region: PRK05309 1150469004245 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1150469004246 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1150469004247 alphaNTD - beta interaction site [polypeptide binding]; other site 1150469004248 alphaNTD homodimer interface [polypeptide binding]; other site 1150469004249 alphaNTD - beta' interaction site [polypeptide binding]; other site 1150469004250 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1150469004251 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1150469004252 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 1150469004253 S-adenosylmethionine binding site [chemical binding]; other site 1150469004254 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 1150469004255 putative active site [active] 1150469004256 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1150469004257 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1150469004258 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1150469004259 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 1150469004260 dimerization interface [polypeptide binding]; other site 1150469004261 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469004262 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469004263 dimer interface [polypeptide binding]; other site 1150469004264 putative CheW interface [polypeptide binding]; other site 1150469004265 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1150469004266 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1150469004267 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1150469004268 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1150469004269 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 1150469004270 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 1150469004271 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1150469004272 Walker A/P-loop; other site 1150469004273 ATP binding site [chemical binding]; other site 1150469004274 Q-loop/lid; other site 1150469004275 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1150469004276 Walker B; other site 1150469004277 D-loop; other site 1150469004278 H-loop/switch region; other site 1150469004279 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469004280 Walker A/P-loop; other site 1150469004281 ATP binding site [chemical binding]; other site 1150469004282 Q-loop/lid; other site 1150469004283 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1150469004284 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 1150469004285 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1150469004286 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 1150469004287 FAD binding pocket [chemical binding]; other site 1150469004288 FAD binding motif [chemical binding]; other site 1150469004289 phosphate binding motif [ion binding]; other site 1150469004290 beta-alpha-beta structure motif; other site 1150469004291 NAD binding pocket [chemical binding]; other site 1150469004292 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 1150469004293 oligomerization interface [polypeptide binding]; other site 1150469004294 active site 1150469004295 metal binding site [ion binding]; metal-binding site 1150469004296 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1150469004297 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1150469004298 active site 1150469004299 ATP-binding site [chemical binding]; other site 1150469004300 pantoate-binding site; other site 1150469004301 HXXH motif; other site 1150469004302 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1150469004303 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1150469004304 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 1150469004305 putative active site [active] 1150469004306 heme pocket [chemical binding]; other site 1150469004307 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 1150469004308 putative active site [active] 1150469004309 heme pocket [chemical binding]; other site 1150469004310 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 1150469004311 dimer interface [polypeptide binding]; other site 1150469004312 phosphorylation site [posttranslational modification] 1150469004313 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 1150469004314 ATP binding site [chemical binding]; other site 1150469004315 Mg2+ binding site [ion binding]; other site 1150469004316 G-X-G motif; other site 1150469004317 anthranilate synthase component I; Provisional; Region: PRK13573 1150469004318 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1150469004319 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1150469004320 periplasmic folding chaperone; Provisional; Region: PRK10788 1150469004321 SurA N-terminal domain; Region: SurA_N_3; cl07813 1150469004322 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1150469004323 Hemerythrin; Region: Hemerythrin; cd12107 1150469004324 Fe binding site [ion binding]; other site 1150469004325 GcrA cell cycle regulator; Region: GcrA; cl11564 1150469004326 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469004327 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469004328 putative CheW interface [polypeptide binding]; other site 1150469004329 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1150469004330 aminotransferase; Provisional; Region: PRK06105 1150469004331 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 1150469004332 inhibitor-cofactor binding pocket; inhibition site 1150469004333 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1150469004334 catalytic residue [active] 1150469004335 Acylphosphatases [Energy production and conversion]; Region: AcyP; COG1254 1150469004336 intracellular septation protein A; Reviewed; Region: PRK00259 1150469004337 ATP12 chaperone protein; Region: ATP12; pfam07542 1150469004338 contig_148 1150469004339 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; cl17639 1150469004340 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 1150469004341 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1150469004342 PYR/PP interface [polypeptide binding]; other site 1150469004343 dimer interface [polypeptide binding]; other site 1150469004344 TPP binding site [chemical binding]; other site 1150469004345 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1150469004346 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 1150469004347 TPP-binding site [chemical binding]; other site 1150469004348 dimer interface [polypeptide binding]; other site 1150469004349 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1150469004350 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1150469004351 putative valine binding site [chemical binding]; other site 1150469004352 dimer interface [polypeptide binding]; other site 1150469004353 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1150469004354 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1150469004355 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1150469004356 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1150469004357 rod shape-determining protein MreB; Provisional; Region: PRK13927 1150469004358 MreB and similar proteins; Region: MreB_like; cd10225 1150469004359 nucleotide binding site [chemical binding]; other site 1150469004360 Mg binding site [ion binding]; other site 1150469004361 putative protofilament interaction site [polypeptide binding]; other site 1150469004362 RodZ interaction site [polypeptide binding]; other site 1150469004363 contig_95 1150469004364 Restriction endonuclease; Region: Mrr_cat; pfam04471 1150469004365 contig_40 1150469004366 aminotransferase; Validated; Region: PRK09148 1150469004367 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 1150469004368 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1150469004369 homodimer interface [polypeptide binding]; other site 1150469004370 catalytic residue [active] 1150469004371 homoserine dehydrogenase; Provisional; Region: PRK06349 1150469004372 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1150469004373 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 1150469004374 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 1150469004375 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 1150469004376 putative active site [active] 1150469004377 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1150469004378 DHH family; Region: DHH; pfam01368 1150469004379 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 1150469004380 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cl17348 1150469004381 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 1150469004382 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 1150469004383 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cl09719 1150469004384 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cl08044 1150469004385 helicase Cas3; Provisional; Region: PRK09694 1150469004386 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 1150469004387 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 1150469004388 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cl08187 1150469004389 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 1150469004390 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 1150469004391 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1150469004392 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 1150469004393 contig_151 1150469004396 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1150469004397 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 1150469004398 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1150469004399 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1150469004400 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1150469004401 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1150469004402 Sporulation related domain; Region: SPOR; pfam05036 1150469004403 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1150469004404 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1150469004405 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1150469004406 thymidylate kinase; Validated; Region: tmk; PRK00698 1150469004407 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 1150469004408 TMP-binding site; other site 1150469004409 ATP-binding site [chemical binding]; other site 1150469004410 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 1150469004411 RNA helicase; Region: RNA_helicase; pfam00910 1150469004412 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 1150469004413 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1150469004414 active site 1150469004415 HIGH motif; other site 1150469004416 KMSKS motif; other site 1150469004417 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1150469004418 tRNA binding surface [nucleotide binding]; other site 1150469004419 anticodon binding site; other site 1150469004420 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1150469004421 active site 1150469004422 contig_245 1150469004423 contig_108 1150469004424 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469004425 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469004426 metal binding site [ion binding]; metal-binding site 1150469004427 active site 1150469004428 I-site; other site 1150469004429 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1150469004430 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1150469004431 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1150469004432 dimerization interface [polypeptide binding]; other site 1150469004433 substrate binding pocket [chemical binding]; other site 1150469004434 EamA-like transporter family; Region: EamA; pfam00892 1150469004435 Predicted transcriptional regulator [Transcription]; Region: COG3905 1150469004436 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 1150469004437 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 1150469004438 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 1150469004439 recombination protein RecR; Reviewed; Region: recR; PRK00076 1150469004440 RecR protein; Region: RecR; pfam02132 1150469004441 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 1150469004442 putative active site [active] 1150469004443 putative metal-binding site [ion binding]; other site 1150469004444 tetramer interface [polypeptide binding]; other site 1150469004445 contig_144 1150469004446 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 1150469004447 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1150469004448 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1150469004449 GAF domain; Region: GAF; cl17456 1150469004450 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1150469004451 Zn2+ binding site [ion binding]; other site 1150469004452 Mg2+ binding site [ion binding]; other site 1150469004453 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1150469004454 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 1150469004455 generic binding surface II; other site 1150469004456 generic binding surface I; other site 1150469004457 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1150469004458 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1150469004459 dimerization interface 3.5A [polypeptide binding]; other site 1150469004460 active site 1150469004461 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1150469004462 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1150469004463 putative active site [active] 1150469004464 substrate binding site [chemical binding]; other site 1150469004465 putative cosubstrate binding site; other site 1150469004466 catalytic site [active] 1150469004467 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1150469004468 substrate binding site [chemical binding]; other site 1150469004469 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 1150469004470 active site 1150469004471 catalytic residues [active] 1150469004472 metal binding site [ion binding]; metal-binding site 1150469004473 contig_48 1150469004474 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 1150469004475 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1150469004476 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469004477 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469004478 dimer interface [polypeptide binding]; other site 1150469004479 putative CheW interface [polypeptide binding]; other site 1150469004480 tellurite resistance protein terB; Region: terB; cd07176 1150469004481 putative metal binding site [ion binding]; other site 1150469004482 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 1150469004483 putative ADP-binding pocket [chemical binding]; other site 1150469004484 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1150469004485 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1150469004486 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 1150469004487 Mg++ binding site [ion binding]; other site 1150469004488 putative catalytic motif [active] 1150469004489 putative substrate binding site [chemical binding]; other site 1150469004490 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1150469004491 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1150469004492 NAD(P) binding site [chemical binding]; other site 1150469004493 homodimer interface [polypeptide binding]; other site 1150469004494 substrate binding site [chemical binding]; other site 1150469004495 active site 1150469004496 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 1150469004497 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1150469004498 tetrameric interface [polypeptide binding]; other site 1150469004499 NAD binding site [chemical binding]; other site 1150469004500 catalytic residues [active] 1150469004501 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 1150469004502 dimerization interface [polypeptide binding]; other site 1150469004503 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469004504 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469004505 dimer interface [polypeptide binding]; other site 1150469004506 putative CheW interface [polypeptide binding]; other site 1150469004507 Hemerythrin; Region: Hemerythrin; cd12107 1150469004508 Fe binding site [ion binding]; other site 1150469004509 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1150469004510 dimer interface [polypeptide binding]; other site 1150469004511 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1150469004512 active site 1150469004513 metal binding site [ion binding]; metal-binding site 1150469004514 glutathione binding site [chemical binding]; other site 1150469004515 pyruvate kinase; Provisional; Region: PRK06247 1150469004516 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 1150469004517 domain interfaces; other site 1150469004518 active site 1150469004519 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1150469004520 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469004521 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469004522 metal binding site [ion binding]; metal-binding site 1150469004523 active site 1150469004524 I-site; other site 1150469004525 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 1150469004526 Ligand Binding Site [chemical binding]; other site 1150469004527 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1150469004528 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1150469004529 Walker A/P-loop; other site 1150469004530 ATP binding site [chemical binding]; other site 1150469004531 Q-loop/lid; other site 1150469004532 ABC transporter signature motif; other site 1150469004533 Walker B; other site 1150469004534 D-loop; other site 1150469004535 H-loop/switch region; other site 1150469004536 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1150469004537 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1150469004538 Walker A/P-loop; other site 1150469004539 ATP binding site [chemical binding]; other site 1150469004540 Q-loop/lid; other site 1150469004541 ABC transporter signature motif; other site 1150469004542 Walker B; other site 1150469004543 D-loop; other site 1150469004544 H-loop/switch region; other site 1150469004545 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1150469004546 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 1150469004547 TM-ABC transporter signature motif; other site 1150469004548 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 1150469004549 TM-ABC transporter signature motif; other site 1150469004550 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1150469004551 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 1150469004552 putative ligand binding site [chemical binding]; other site 1150469004553 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1150469004554 Zn2+ binding site [ion binding]; other site 1150469004555 Mg2+ binding site [ion binding]; other site 1150469004556 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1150469004557 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1150469004558 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1150469004559 active site 1150469004560 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1150469004561 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1150469004562 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1150469004563 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1150469004564 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1150469004565 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 1150469004566 FeS/SAM binding site; other site 1150469004567 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 1150469004568 elongation factor G; Reviewed; Region: PRK12740 1150469004569 G1 box; other site 1150469004570 putative GEF interaction site [polypeptide binding]; other site 1150469004571 GTP/Mg2+ binding site [chemical binding]; other site 1150469004572 Switch I region; other site 1150469004573 G2 box; other site 1150469004574 G3 box; other site 1150469004575 Switch II region; other site 1150469004576 G4 box; other site 1150469004577 G5 box; other site 1150469004578 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 1150469004579 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 1150469004580 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 1150469004581 aspartate aminotransferase; Provisional; Region: PRK05764 1150469004582 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 1150469004583 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1150469004584 homodimer interface [polypeptide binding]; other site 1150469004585 catalytic residue [active] 1150469004586 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1150469004587 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1150469004588 Cache domain; Region: Cache_1; pfam02743 1150469004589 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 1150469004590 dimerization interface [polypeptide binding]; other site 1150469004591 PAS domain; Region: PAS_9; pfam13426 1150469004592 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 1150469004593 dimer interface [polypeptide binding]; other site 1150469004594 phosphorylation site [posttranslational modification] 1150469004595 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 1150469004596 ATP binding site [chemical binding]; other site 1150469004597 Mg2+ binding site [ion binding]; other site 1150469004598 G-X-G motif; other site 1150469004599 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 1150469004600 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1150469004601 active site 1150469004602 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 1150469004603 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1150469004604 catalytic residue [active] 1150469004605 AAA domain; Region: AAA_26; pfam13500 1150469004606 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1150469004607 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 1150469004608 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 1150469004609 inhibitor-cofactor binding pocket; inhibition site 1150469004610 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1150469004611 catalytic residue [active] 1150469004612 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK05963 1150469004613 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 1150469004614 dimer interface [polypeptide binding]; other site 1150469004615 active site 1150469004616 CoA binding pocket [chemical binding]; other site 1150469004617 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 1150469004618 Ligand Binding Site [chemical binding]; other site 1150469004619 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 1150469004620 Ligand Binding Site [chemical binding]; other site 1150469004621 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1150469004622 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 1150469004623 Walker A motif; other site 1150469004624 ATP binding site [chemical binding]; other site 1150469004625 Walker B motif; other site 1150469004626 arginine finger; other site 1150469004627 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1150469004628 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 1150469004629 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1150469004630 NAD(P) binding site [chemical binding]; other site 1150469004631 catalytic residues [active] 1150469004632 putative alcohol dehydrogenase; Provisional; Region: PRK09860 1150469004633 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 1150469004634 dimer interface [polypeptide binding]; other site 1150469004635 active site 1150469004636 metal binding site [ion binding]; metal-binding site 1150469004637 enoyl-CoA hydratase; Provisional; Region: PRK05862 1150469004638 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 1150469004639 substrate binding site [chemical binding]; other site 1150469004640 oxyanion hole (OAH) forming residues; other site 1150469004641 trimer interface [polypeptide binding]; other site 1150469004642 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1150469004643 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1150469004644 DNA binding site [nucleotide binding] 1150469004645 catalytic residue [active] 1150469004646 H2TH interface [polypeptide binding]; other site 1150469004647 putative catalytic residues [active] 1150469004648 turnover-facilitating residue; other site 1150469004649 intercalation triad [nucleotide binding]; other site 1150469004650 8OG recognition residue [nucleotide binding]; other site 1150469004651 putative reading head residues; other site 1150469004652 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1150469004653 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1150469004654 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 1150469004655 S-adenosylmethionine binding site [chemical binding]; other site 1150469004656 ABC1 family; Region: ABC1; cl17513 1150469004657 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1150469004658 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1150469004659 Flavoprotein; Region: Flavoprotein; pfam02441 1150469004660 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1150469004661 Rrf2 family protein; Region: rrf2_super; TIGR00738 1150469004662 Transcriptional regulator; Region: Rrf2; pfam02082 1150469004663 YceG-like family; Region: YceG; pfam02618 1150469004664 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1150469004665 dimerization interface [polypeptide binding]; other site 1150469004666 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1150469004667 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1150469004668 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 1150469004669 dimer interface [polypeptide binding]; other site 1150469004670 active site 1150469004671 acyl carrier protein; Provisional; Region: acpP; PRK00982 1150469004672 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 1150469004673 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1150469004674 NAD(P) binding site [chemical binding]; other site 1150469004675 active site 1150469004676 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1150469004677 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1150469004678 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1150469004679 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1150469004680 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1150469004681 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1150469004682 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1150469004683 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 1150469004684 active site 1150469004685 DNA binding site [nucleotide binding] 1150469004686 Int/Topo IB signature motif; other site 1150469004687 shikimate kinase; Provisional; Region: PRK13946 1150469004688 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 1150469004689 ADP binding site [chemical binding]; other site 1150469004690 magnesium binding site [ion binding]; other site 1150469004691 putative shikimate binding site; other site 1150469004692 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1150469004693 Domain of unknown function DUF21; Region: DUF21; pfam01595 1150469004694 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 1150469004695 Transporter associated domain; Region: CorC_HlyC; smart01091 1150469004696 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 1150469004697 recombinase A; Provisional; Region: recA; PRK09354 1150469004698 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 1150469004699 hexamer interface [polypeptide binding]; other site 1150469004700 Walker A motif; other site 1150469004701 ATP binding site [chemical binding]; other site 1150469004702 Walker B motif; other site 1150469004703 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1150469004704 PAS domain; Region: PAS; smart00091 1150469004705 putative active site [active] 1150469004706 heme pocket [chemical binding]; other site 1150469004707 PAS domain; Region: PAS; smart00091 1150469004708 PAS fold; Region: PAS_4; pfam08448 1150469004709 putative active site [active] 1150469004710 heme pocket [chemical binding]; other site 1150469004711 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1150469004712 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 1150469004713 dimer interface [polypeptide binding]; other site 1150469004714 phosphorylation site [posttranslational modification] 1150469004715 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 1150469004716 ATP binding site [chemical binding]; other site 1150469004717 Mg2+ binding site [ion binding]; other site 1150469004718 G-X-G motif; other site 1150469004719 Response regulator receiver domain; Region: Response_reg; pfam00072 1150469004720 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 1150469004721 active site 1150469004722 phosphorylation site [posttranslational modification] 1150469004723 intermolecular recognition site; other site 1150469004724 dimerization interface [polypeptide binding]; other site 1150469004725 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1150469004726 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1150469004727 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1150469004728 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 1150469004729 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 1150469004730 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1150469004731 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1150469004732 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06004 1150469004733 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1150469004734 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1150469004735 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1150469004736 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1150469004737 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 1150469004738 sequence-specific DNA binding site [nucleotide binding]; other site 1150469004739 salt bridge; other site 1150469004740 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1150469004741 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1150469004742 putative RNA binding site [nucleotide binding]; other site 1150469004743 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 1150469004744 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1150469004745 Low-spin heme binding site [chemical binding]; other site 1150469004746 Putative water exit pathway; other site 1150469004747 Binuclear center (active site) [active] 1150469004748 Putative proton exit pathway; other site 1150469004749 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1150469004750 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 1150469004751 Cytochrome cbb oxidase CcoQ. 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 of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 1150469004752 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1150469004753 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1150469004754 Cytochrome c; Region: Cytochrom_C; pfam00034 1150469004755 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1150469004756 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 1150469004757 dimerization interface [polypeptide binding]; other site 1150469004758 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469004759 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469004760 dimer interface [polypeptide binding]; other site 1150469004761 putative CheW interface [polypeptide binding]; other site 1150469004762 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1150469004763 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 1150469004764 dimerization interface [polypeptide binding]; other site 1150469004765 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469004766 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469004767 dimer interface [polypeptide binding]; other site 1150469004768 putative CheW interface [polypeptide binding]; other site 1150469004769 hypothetical protein; Provisional; Region: PRK09256 1150469004770 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1150469004771 Fe-S cluster binding site [ion binding]; other site 1150469004772 active site 1150469004773 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1150469004774 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1150469004775 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1150469004776 Plant thionin; Region: Thionin; pfam00321 1150469004777 TPR repeat; Region: TPR_11; pfam13414 1150469004778 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 1150469004779 binding surface 1150469004780 TPR motif; other site 1150469004781 TPR repeat; Region: TPR_11; pfam13414 1150469004782 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 1150469004783 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1150469004784 Protein of unknown function (DUF563); Region: DUF563; pfam04577 1150469004785 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1150469004786 BON domain; Region: BON; pfam04972 1150469004787 glutathione synthetase; Provisional; Region: PRK05246 1150469004788 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1150469004789 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1150469004790 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 1150469004791 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1150469004792 Walker A/P-loop; other site 1150469004793 ATP binding site [chemical binding]; other site 1150469004794 Q-loop/lid; other site 1150469004795 ABC transporter signature motif; other site 1150469004796 Walker B; other site 1150469004797 D-loop; other site 1150469004798 H-loop/switch region; other site 1150469004799 Cobalt transport protein; Region: CbiQ; cl00463 1150469004800 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1150469004801 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 1150469004802 putative active site [active] 1150469004803 heme pocket [chemical binding]; other site 1150469004804 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 1150469004805 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1150469004806 putative active site [active] 1150469004807 heme pocket [chemical binding]; other site 1150469004808 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 1150469004809 dimer interface [polypeptide binding]; other site 1150469004810 phosphorylation site [posttranslational modification] 1150469004811 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 1150469004812 ATP binding site [chemical binding]; other site 1150469004813 Mg2+ binding site [ion binding]; other site 1150469004814 G-X-G motif; other site 1150469004815 Predicted thioesterase [General function prediction only]; Region: COG5496 1150469004816 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1150469004817 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 1150469004818 acyl-activating enzyme (AAE) consensus motif; other site 1150469004819 AMP binding site [chemical binding]; other site 1150469004820 active site 1150469004821 CoA binding site [chemical binding]; other site 1150469004822 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1150469004823 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1150469004824 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 1150469004825 S-adenosylmethionine binding site [chemical binding]; other site 1150469004826 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1150469004827 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1150469004828 contig_149 1150469004829 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1150469004830 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 1150469004831 NAD(P) binding site [chemical binding]; other site 1150469004832 active site 1150469004833 amidophosphoribosyltransferase; Provisional; Region: PRK09123 1150469004834 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 1150469004835 active site 1150469004836 tetramer interface [polypeptide binding]; other site 1150469004837 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1150469004838 active site 1150469004839 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1150469004840 Colicin V production protein; Region: Colicin_V; pfam02674 1150469004841 DNA repair protein RadA; Provisional; Region: PRK11823 1150469004842 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 1150469004843 Walker A motif/ATP binding site; other site 1150469004844 ATP binding site [chemical binding]; other site 1150469004845 Walker B motif; other site 1150469004846 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1150469004847 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1150469004848 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1150469004849 Walker A/P-loop; other site 1150469004850 ATP binding site [chemical binding]; other site 1150469004851 Q-loop/lid; other site 1150469004852 ABC transporter signature motif; other site 1150469004853 Walker B; other site 1150469004854 D-loop; other site 1150469004855 H-loop/switch region; other site 1150469004856 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1150469004857 Permease; Region: Permease; pfam02405 1150469004858 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1150469004859 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1150469004860 active site 1150469004861 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1150469004862 dimer interface [polypeptide binding]; other site 1150469004863 substrate binding site [chemical binding]; other site 1150469004864 catalytic residues [active] 1150469004865 replicative DNA helicase; Provisional; Region: PRK09165 1150469004866 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1150469004867 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 1150469004868 Walker A motif; other site 1150469004869 ATP binding site [chemical binding]; other site 1150469004870 Walker B motif; other site 1150469004871 DNA binding loops [nucleotide binding] 1150469004872 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 1150469004873 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1150469004874 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1150469004875 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1150469004876 Walker A/P-loop; other site 1150469004877 ATP binding site [chemical binding]; other site 1150469004878 Q-loop/lid; other site 1150469004879 ABC transporter signature motif; other site 1150469004880 Walker B; other site 1150469004881 D-loop; other site 1150469004882 H-loop/switch region; other site 1150469004883 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1150469004884 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1150469004885 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 1150469004886 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 1150469004887 VacJ like lipoprotein; Region: VacJ; cl01073 1150469004888 contig_121 1150469004889 DNA photolyase; Region: DNA_photolyase; pfam00875 1150469004890 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 1150469004891 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1150469004892 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1150469004893 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1150469004894 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1150469004895 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1150469004896 Domain of Unknown Function with PDB structure (DUF3861); Region: DUF3861; pfam12977 1150469004897 Predicted transcriptional regulators [Transcription]; Region: COG1695 1150469004898 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1150469004899 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1150469004900 ThiC-associated domain; Region: ThiC-associated; pfam13667 1150469004901 ThiC family; Region: ThiC; pfam01964 1150469004902 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 1150469004903 non-specific DNA binding site [nucleotide binding]; other site 1150469004904 sequence-specific DNA binding site [nucleotide binding]; other site 1150469004905 salt bridge; other site 1150469004906 contig_158 1150469004907 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1150469004908 oligomeric interface; other site 1150469004909 putative active site [active] 1150469004910 homodimer interface [polypeptide binding]; other site 1150469004911 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1150469004912 contig_153 1150469004913 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 1150469004914 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 1150469004915 5'-methylthioadenosine phosphorylase; Provisional; Region: PRK08931 1150469004916 Predicted transcriptional regulators [Transcription]; Region: COG1733 1150469004917 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 1150469004918 dimerization interface [polypeptide binding]; other site 1150469004919 putative DNA binding site [nucleotide binding]; other site 1150469004920 putative Zn2+ binding site [ion binding]; other site 1150469004921 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1150469004922 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 1150469004923 putative active site [active] 1150469004924 Zn binding site [ion binding]; other site 1150469004925 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1150469004926 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1150469004927 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1150469004928 substrate binding pocket [chemical binding]; other site 1150469004929 chain length determination region; other site 1150469004930 substrate-Mg2+ binding site; other site 1150469004931 catalytic residues [active] 1150469004932 aspartate-rich region 1; other site 1150469004933 active site lid residues [active] 1150469004934 aspartate-rich region 2; other site 1150469004935 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1150469004936 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 1150469004937 TPP-binding site; other site 1150469004938 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 1150469004939 PYR/PP interface [polypeptide binding]; other site 1150469004940 dimer interface [polypeptide binding]; other site 1150469004941 TPP binding site [chemical binding]; other site 1150469004942 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1150469004943 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1150469004944 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 1150469004945 RNA binding surface [nucleotide binding]; other site 1150469004946 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 1150469004947 S-adenosylmethionine binding site [chemical binding]; other site 1150469004948 Response regulator receiver domain; Region: Response_reg; pfam00072 1150469004949 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 1150469004950 active site 1150469004951 phosphorylation site [posttranslational modification] 1150469004952 intermolecular recognition site; other site 1150469004953 dimerization interface [polypeptide binding]; other site 1150469004954 PAS fold; Region: PAS_2; pfam08446 1150469004955 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1150469004956 Phytochrome region; Region: PHY; pfam00360 1150469004957 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 1150469004958 PAS domain; Region: PAS_9; pfam13426 1150469004959 putative active site [active] 1150469004960 heme pocket [chemical binding]; other site 1150469004961 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 1150469004962 dimer interface [polypeptide binding]; other site 1150469004963 phosphorylation site [posttranslational modification] 1150469004964 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 1150469004965 ATP binding site [chemical binding]; other site 1150469004966 Mg2+ binding site [ion binding]; other site 1150469004967 G-X-G motif; other site 1150469004968 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 1150469004969 PAS domain; Region: PAS_9; pfam13426 1150469004970 putative active site [active] 1150469004971 heme pocket [chemical binding]; other site 1150469004972 PAS domain; Region: PAS_9; pfam13426 1150469004973 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 1150469004974 PAS domain; Region: PAS_9; pfam13426 1150469004975 putative active site [active] 1150469004976 heme pocket [chemical binding]; other site 1150469004977 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 1150469004978 PAS domain; Region: PAS_9; pfam13426 1150469004979 putative active site [active] 1150469004980 heme pocket [chemical binding]; other site 1150469004981 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469004982 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469004983 metal binding site [ion binding]; metal-binding site 1150469004984 active site 1150469004985 I-site; other site 1150469004986 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1150469004987 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 1150469004988 intersubunit interface [polypeptide binding]; other site 1150469004989 active site 1150469004990 zinc binding site [ion binding]; other site 1150469004991 Na+ binding site [ion binding]; other site 1150469004992 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1150469004993 active site 1150469004994 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 1150469004995 contig_150 1150469004996 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1150469004997 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1150469004998 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 1150469004999 Ligand Binding Site [chemical binding]; other site 1150469005000 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 1150469005001 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK01474 1150469005002 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1150469005003 gamma subunit interface [polypeptide binding]; other site 1150469005004 epsilon subunit interface [polypeptide binding]; other site 1150469005005 LBP interface [polypeptide binding]; other site 1150469005006 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1150469005007 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1150469005008 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 1150469005009 alpha subunit interaction interface [polypeptide binding]; other site 1150469005010 Walker A motif; other site 1150469005011 ATP binding site [chemical binding]; other site 1150469005012 Walker B motif; other site 1150469005013 inhibitor binding site; inhibition site 1150469005014 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1150469005015 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1150469005016 core domain interface [polypeptide binding]; other site 1150469005017 delta subunit interface [polypeptide binding]; other site 1150469005018 epsilon subunit interface [polypeptide binding]; other site 1150469005019 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1150469005020 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1150469005021 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 1150469005022 beta subunit interaction interface [polypeptide binding]; other site 1150469005023 Walker A motif; other site 1150469005024 ATP binding site [chemical binding]; other site 1150469005025 Walker B motif; other site 1150469005026 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1150469005027 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1150469005028 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1150469005029 primosome assembly protein PriA; Validated; Region: PRK05580 1150469005030 contig_159 1150469005031 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1150469005032 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 1150469005033 dimerization interface [polypeptide binding]; other site 1150469005034 putative ATP binding site [chemical binding]; other site 1150469005035 contig_160 1150469005036 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1150469005037 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1150469005038 Walker A/P-loop; other site 1150469005039 ATP binding site [chemical binding]; other site 1150469005040 Q-loop/lid; other site 1150469005041 ABC transporter signature motif; other site 1150469005042 Walker B; other site 1150469005043 D-loop; other site 1150469005044 H-loop/switch region; other site 1150469005045 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 1150469005046 active site 1150469005047 catalytic triad [active] 1150469005048 oxyanion hole [active] 1150469005049 switch loop; other site 1150469005050 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1150469005051 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1150469005052 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 1150469005053 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 1150469005054 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 1150469005055 Walker A motif; other site 1150469005056 ATP binding site [chemical binding]; other site 1150469005057 Walker B motif; other site 1150469005058 arginine finger; other site 1150469005059 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1150469005060 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 1150469005061 hypothetical protein; Validated; Region: PRK00153 1150469005062 contig_139 1150469005063 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1150469005064 active site 1150469005065 metal binding site [ion binding]; metal-binding site 1150469005066 DNA binding site [nucleotide binding] 1150469005067 P-loop containing region of AAA domain; Region: AAA_29; cl17516 1150469005068 AAA domain; Region: AAA_23; pfam13476 1150469005069 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 1150469005070 GSH binding site [chemical binding]; other site 1150469005071 catalytic residues [active] 1150469005072 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1150469005073 nitrilase; Region: PLN02798 1150469005074 putative active site [active] 1150469005075 catalytic triad [active] 1150469005076 dimer interface [polypeptide binding]; other site 1150469005077 contig_155 1150469005078 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1150469005079 active site lid residues [active] 1150469005080 substrate binding pocket [chemical binding]; other site 1150469005081 catalytic residues [active] 1150469005082 substrate-Mg2+ binding site; other site 1150469005083 aspartate-rich region 1; other site 1150469005084 aspartate-rich region 2; other site 1150469005085 phytoene desaturase; Region: crtI_fam; TIGR02734 1150469005086 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1150469005087 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1150469005088 TspO/MBR family; Region: TspO_MBR; pfam03073 1150469005089 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 1150469005090 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 1150469005091 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1150469005092 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469005093 Walker A/P-loop; other site 1150469005094 ATP binding site [chemical binding]; other site 1150469005095 Q-loop/lid; other site 1150469005096 ABC transporter signature motif; other site 1150469005097 Walker B; other site 1150469005098 D-loop; other site 1150469005099 H-loop/switch region; other site 1150469005100 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1150469005101 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1150469005102 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 1150469005103 putative active site [active] 1150469005104 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1150469005105 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1150469005106 putative acyl-acceptor binding pocket; other site 1150469005107 magnesium chelatase subunit I; Provisional; Region: bchI; PRK13407 1150469005108 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 1150469005109 Walker A motif; other site 1150469005110 ATP binding site [chemical binding]; other site 1150469005111 contig_163 1150469005112 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 1150469005113 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1150469005114 PAS domain S-box; Region: sensory_box; TIGR00229 1150469005115 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 1150469005116 putative active site [active] 1150469005117 heme pocket [chemical binding]; other site 1150469005118 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 1150469005119 PAS domain; Region: PAS_9; pfam13426 1150469005120 putative active site [active] 1150469005121 heme pocket [chemical binding]; other site 1150469005122 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469005123 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469005124 metal binding site [ion binding]; metal-binding site 1150469005125 active site 1150469005126 I-site; other site 1150469005127 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1150469005128 classical (c) SDRs; Region: SDR_c; cd05233 1150469005129 NAD(P) binding site [chemical binding]; other site 1150469005130 active site 1150469005131 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 1150469005132 Ligand Binding Site [chemical binding]; other site 1150469005133 contig_156 1150469005134 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 1150469005135 S-adenosylmethionine binding site [chemical binding]; other site 1150469005136 Cytochrome C subunit of the bacterial photosynthetic reaction center; Region: CytoC_RC; cd09224 1150469005137 subunit interface [polypeptide binding]; other site 1150469005138 Heme binding sites [chemical binding]; other site 1150469005139 Subunit M of bacterial photosynthetic reaction center; Region: Photo-RC_M; cd09291 1150469005140 subunit H interface; other site 1150469005141 subunit L interface; other site 1150469005142 bacteriopheophytin binding site; other site 1150469005143 carotenoid binding site; other site 1150469005144 bacteriochlorophyll binding site; other site 1150469005145 cytochrome C interface; other site 1150469005146 quinone binding site; other site 1150469005147 Fe binding site [ion binding]; other site 1150469005148 Subunit L of bacterial photosynthetic reaction center; Region: Photo-RC_L; cd09290 1150469005149 subunit M interface; other site 1150469005150 subunit H interface; other site 1150469005151 quinone binding site; other site 1150469005152 bacteriopheophytin binding site; other site 1150469005153 bacteriochlorophyll binding site; other site 1150469005154 cytochrome C subunit interface; other site 1150469005155 Fe binding site [ion binding]; other site 1150469005156 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 1150469005157 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 1150469005158 chlorophyllide reductase subunit Z; Region: BchZ; TIGR02014 1150469005159 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 1150469005160 chlorophyllide reductase subunit Y; Region: BchY; TIGR02015 1150469005161 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 1150469005162 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 1150469005163 chlorophyllide reductase iron protein subunit X; Region: BchX; TIGR02016 1150469005164 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase; Region: bchC; TIGR01202 1150469005165 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1150469005166 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1150469005167 O-methyltransferase; Region: Methyltransf_2; pfam00891 1150469005168 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1150469005169 contig_132 1150469005170 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1150469005171 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1150469005172 active site 1150469005173 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1150469005174 substrate binding site [chemical binding]; other site 1150469005175 catalytic residues [active] 1150469005176 dimer interface [polypeptide binding]; other site 1150469005177 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1150469005178 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1150469005179 active site 1150469005180 HIGH motif; other site 1150469005181 dimer interface [polypeptide binding]; other site 1150469005182 KMSKS motif; other site 1150469005183 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 1150469005184 putative FMN binding site [chemical binding]; other site 1150469005185 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1150469005186 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 1150469005187 active site 1150469005188 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1150469005189 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 1150469005190 putative peptidase; Provisional; Region: PRK11649 1150469005191 Peptidase family M23; Region: Peptidase_M23; pfam01551 1150469005192 contig_162 1150469005193 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 1150469005194 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1150469005195 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1150469005196 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1150469005197 Coenzyme A binding pocket [chemical binding]; other site 1150469005198 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1150469005199 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1150469005200 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1150469005201 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 1150469005202 ATP binding site [chemical binding]; other site 1150469005203 putative Mg++ binding site [ion binding]; other site 1150469005204 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 1150469005205 nucleotide binding region [chemical binding]; other site 1150469005206 ATP-binding site [chemical binding]; other site 1150469005207 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1150469005208 HRDC domain; Region: HRDC; pfam00570 1150469005209 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1150469005210 TAP-like protein; Region: Abhydrolase_4; pfam08386 1150469005211 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469005212 putative CheW interface [polypeptide binding]; other site 1150469005213 contig_167 1150469005214 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1150469005215 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 1150469005216 P-loop; other site 1150469005217 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 1150469005218 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 1150469005219 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1150469005220 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469005221 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469005222 metal binding site [ion binding]; metal-binding site 1150469005223 active site 1150469005224 I-site; other site 1150469005225 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 1150469005226 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1150469005227 putative metal binding site [ion binding]; other site 1150469005228 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1150469005229 Clp amino terminal domain; Region: Clp_N; pfam02861 1150469005230 Clp amino terminal domain; Region: Clp_N; pfam02861 1150469005231 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 1150469005232 Walker A motif; other site 1150469005233 ATP binding site [chemical binding]; other site 1150469005234 Walker B motif; other site 1150469005235 arginine finger; other site 1150469005236 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 1150469005237 Walker A motif; other site 1150469005238 ATP binding site [chemical binding]; other site 1150469005239 Walker B motif; other site 1150469005240 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1150469005241 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1150469005242 contig_174 1150469005243 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1150469005244 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1150469005245 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1150469005246 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1150469005247 rod shape-determining protein MreC; Provisional; Region: PRK13922 1150469005248 rod shape-determining protein MreC; Region: MreC; pfam04085 1150469005249 contig_175 1150469005250 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 1150469005251 binding surface 1150469005252 TPR repeat; Region: TPR_11; pfam13414 1150469005253 TPR motif; other site 1150469005254 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 1150469005255 binding surface 1150469005256 TPR motif; other site 1150469005257 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1150469005258 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 1150469005259 putative CheA interaction surface; other site 1150469005260 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1150469005261 trimer interface [polypeptide binding]; other site 1150469005262 active site 1150469005263 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1150469005264 active site 1150469005265 SAM binding site [chemical binding]; other site 1150469005266 homodimer interface [polypeptide binding]; other site 1150469005267 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1150469005268 contig_161 1150469005269 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 1150469005270 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 1150469005271 putative ADP-binding pocket [chemical binding]; other site 1150469005272 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1150469005273 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1150469005274 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1150469005275 PAS fold; Region: PAS; pfam00989 1150469005276 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 1150469005277 putative active site [active] 1150469005278 heme pocket [chemical binding]; other site 1150469005279 PAS fold; Region: PAS_3; pfam08447 1150469005280 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 1150469005281 heme pocket [chemical binding]; other site 1150469005282 putative active site [active] 1150469005283 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 1150469005284 dimer interface [polypeptide binding]; other site 1150469005285 phosphorylation site [posttranslational modification] 1150469005286 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 1150469005287 ATP binding site [chemical binding]; other site 1150469005288 Mg2+ binding site [ion binding]; other site 1150469005289 G-X-G motif; other site 1150469005290 tricarballylate dehydrogenase; Validated; Region: PRK08274 1150469005291 tricarballylate dehydrogenase; Validated; Region: PRK08274 1150469005292 CitB domain protein; Region: CitB; TIGR02484 1150469005293 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 1150469005294 contig_146 1150469005295 O-Antigen ligase; Region: Wzy_C; pfam04932 1150469005296 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1150469005297 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1150469005298 Sporulation related domain; Region: SPOR; pfam05036 1150469005299 Uncharacterized conserved protein [Function unknown]; Region: COG2127 1150469005300 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 1150469005301 Clp amino terminal domain; Region: Clp_N; pfam02861 1150469005302 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 1150469005303 Walker A motif; other site 1150469005304 ATP binding site [chemical binding]; other site 1150469005305 Walker B motif; other site 1150469005306 arginine finger; other site 1150469005307 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 1150469005308 Walker A motif; other site 1150469005309 ATP binding site [chemical binding]; other site 1150469005310 Walker B motif; other site 1150469005311 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1150469005312 PAS domain S-box; Region: sensory_box; TIGR00229 1150469005313 PAS domain S-box; Region: sensory_box; TIGR00229 1150469005314 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 1150469005315 putative active site [active] 1150469005316 heme pocket [chemical binding]; other site 1150469005317 PAS domain S-box; Region: sensory_box; TIGR00229 1150469005318 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 1150469005319 putative active site [active] 1150469005320 heme pocket [chemical binding]; other site 1150469005321 PAS fold; Region: PAS_3; pfam08447 1150469005322 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1150469005323 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 1150469005324 dimer interface [polypeptide binding]; other site 1150469005325 phosphorylation site [posttranslational modification] 1150469005326 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 1150469005327 ATP binding site [chemical binding]; other site 1150469005328 Mg2+ binding site [ion binding]; other site 1150469005329 G-X-G motif; other site 1150469005330 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 1150469005331 active site 1150469005332 phosphorylation site [posttranslational modification] 1150469005333 intermolecular recognition site; other site 1150469005334 contig_170 1150469005335 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 1150469005336 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 1150469005337 active site 1150469005338 motif I; other site 1150469005339 motif II; other site 1150469005340 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1150469005341 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 1150469005342 quinone interaction residues [chemical binding]; other site 1150469005343 active site 1150469005344 catalytic residues [active] 1150469005345 FMN binding site [chemical binding]; other site 1150469005346 substrate binding site [chemical binding]; other site 1150469005347 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1150469005348 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1150469005349 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1150469005350 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1150469005351 acyl-activating enzyme (AAE) consensus motif; other site 1150469005352 acyl-activating enzyme (AAE) consensus motif; other site 1150469005353 putative AMP binding site [chemical binding]; other site 1150469005354 putative active site [active] 1150469005355 putative CoA binding site [chemical binding]; other site 1150469005356 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 1150469005357 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 1150469005358 active site 1150469005359 Zn binding site [ion binding]; other site 1150469005360 contig_154 1150469005361 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 1150469005362 catalytic core [active] 1150469005363 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1150469005364 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1150469005365 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1150469005366 putative dimer interface [polypeptide binding]; other site 1150469005367 active site pocket [active] 1150469005368 putative cataytic base [active] 1150469005369 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469005370 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469005371 dimer interface [polypeptide binding]; other site 1150469005372 putative CheW interface [polypeptide binding]; other site 1150469005373 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1150469005374 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1150469005375 HlyD family secretion protein; Region: HlyD_3; pfam13437 1150469005376 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1150469005377 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1150469005378 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 1150469005379 active site 1150469005380 phosphorylation site [posttranslational modification] 1150469005381 intermolecular recognition site; other site 1150469005382 dimerization interface [polypeptide binding]; other site 1150469005383 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 1150469005384 DNA binding site [nucleotide binding] 1150469005385 contig_169 1150469005386 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1150469005387 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1150469005388 putative ligand binding site [chemical binding]; other site 1150469005389 HEAT repeats; Region: HEAT_2; pfam13646 1150469005390 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 1150469005391 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1150469005392 TM-ABC transporter signature motif; other site 1150469005393 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1150469005394 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 1150469005395 TM-ABC transporter signature motif; other site 1150469005396 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 1150469005397 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1150469005398 Walker A/P-loop; other site 1150469005399 ATP binding site [chemical binding]; other site 1150469005400 Q-loop/lid; other site 1150469005401 ABC transporter signature motif; other site 1150469005402 Walker B; other site 1150469005403 D-loop; other site 1150469005404 H-loop/switch region; other site 1150469005405 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1150469005406 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1150469005407 Walker A/P-loop; other site 1150469005408 ATP binding site [chemical binding]; other site 1150469005409 Q-loop/lid; other site 1150469005410 ABC transporter signature motif; other site 1150469005411 Walker B; other site 1150469005412 D-loop; other site 1150469005413 H-loop/switch region; other site 1150469005414 UreD urease accessory protein; Region: UreD; pfam01774 1150469005415 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 1150469005416 alpha-gamma subunit interface [polypeptide binding]; other site 1150469005417 beta-gamma subunit interface [polypeptide binding]; other site 1150469005418 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 1150469005419 gamma-beta subunit interface [polypeptide binding]; other site 1150469005420 alpha-beta subunit interface [polypeptide binding]; other site 1150469005421 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1150469005422 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 1150469005423 subunit interactions [polypeptide binding]; other site 1150469005424 active site 1150469005425 flap region; other site 1150469005426 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 1150469005427 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 1150469005428 dimer interface [polypeptide binding]; other site 1150469005429 catalytic residues [active] 1150469005430 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1150469005431 UreF; Region: UreF; pfam01730 1150469005432 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 1150469005433 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1150469005434 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1150469005435 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1150469005436 active site 1150469005437 HIGH motif; other site 1150469005438 dimer interface [polypeptide binding]; other site 1150469005439 KMSKS motif; other site 1150469005440 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 1150469005441 RNA binding surface [nucleotide binding]; other site 1150469005442 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1150469005443 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1150469005444 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1150469005445 serine O-acetyltransferase; Region: cysE; TIGR01172 1150469005446 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 1150469005447 trimer interface [polypeptide binding]; other site 1150469005448 active site 1150469005449 substrate binding site [chemical binding]; other site 1150469005450 CoA binding site [chemical binding]; other site 1150469005451 Transcriptional regulator; Region: Rrf2; cl17282 1150469005452 Rrf2 family protein; Region: rrf2_super; TIGR00738 1150469005453 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 1150469005454 putative deacylase active site [active] 1150469005455 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1150469005456 FAD binding domain; Region: FAD_binding_4; pfam01565 1150469005457 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1150469005458 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 1150469005459 Walker A motif; other site 1150469005460 ATP binding site [chemical binding]; other site 1150469005461 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1150469005462 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1150469005463 enoyl-CoA hydratase; Provisional; Region: PRK06127 1150469005464 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 1150469005465 substrate binding site [chemical binding]; other site 1150469005466 oxyanion hole (OAH) forming residues; other site 1150469005467 trimer interface [polypeptide binding]; other site 1150469005468 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1150469005469 active site 1150469005470 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 1150469005471 putative DNA binding site [nucleotide binding]; other site 1150469005472 putative Zn2+ binding site [ion binding]; other site 1150469005473 AsnC family; Region: AsnC_trans_reg; pfam01037 1150469005474 contig_3 1150469005475 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1150469005476 DDE superfamily endonuclease; Region: DDE_4; cl17710 1150469005477 Domain of unknown function (DUF932); Region: DUF932; pfam06067 1150469005478 Uncharacterized conserved protein (DUF2285); Region: DUF2285; pfam10074 1150469005479 Helix-turn-helix domain; Region: HTH_17; pfam12728 1150469005480 Replication initiator protein A; Region: RPA; pfam10134 1150469005481 ParA-like protein; Provisional; Region: PHA02518 1150469005482 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 1150469005483 P-loop; other site 1150469005484 Magnesium ion binding site [ion binding]; other site 1150469005485 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 1150469005486 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 1150469005487 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 1150469005488 Protein of unknown function (DUF736); Region: DUF736; pfam05284 1150469005489 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1150469005490 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 1150469005491 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1150469005492 catalytic residue [active] 1150469005493 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 1150469005494 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 1150469005495 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1150469005496 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1150469005497 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 1150469005498 dimerization interface [polypeptide binding]; other site 1150469005499 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1150469005500 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1150469005501 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1150469005502 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 1150469005503 dimerization interface [polypeptide binding]; other site 1150469005504 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 1150469005505 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1150469005506 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1150469005507 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 1150469005508 putative substrate translocation pore; other site 1150469005509 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1150469005510 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1150469005511 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1150469005512 dimerization interface [polypeptide binding]; other site 1150469005513 substrate binding pocket [chemical binding]; other site 1150469005514 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 1150469005515 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 1150469005516 Walker A motif; other site 1150469005517 ATP binding site [chemical binding]; other site 1150469005518 Walker B motif; other site 1150469005519 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1150469005520 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 1150469005521 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1150469005522 ATP binding site [chemical binding]; other site 1150469005523 Walker A motif; other site 1150469005524 hexamer interface [polypeptide binding]; other site 1150469005525 Walker B motif; other site 1150469005526 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 1150469005527 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 1150469005528 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 1150469005529 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1150469005530 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 1150469005531 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 1150469005532 conjugative transfer region protein TrbK; Region: other_trbK; TIGR04360 1150469005533 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 1150469005534 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 1150469005535 conjugal transfer protein TrbF; Provisional; Region: PRK13872 1150469005536 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1150469005537 VirB7 interaction site; other site 1150469005538 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 1150469005539 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 1150469005540 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1150469005541 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 1150469005542 catalytic residues [active] 1150469005543 catalytic nucleophile [active] 1150469005544 Recombinase; Region: Recombinase; pfam07508 1150469005545 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1150469005546 Thymidylate synthase complementing protein; Region: Thy1; cl03630 1150469005547 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1150469005548 trimer interface [polypeptide binding]; other site 1150469005549 active site 1150469005550 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_cladeA; cd00883 1150469005551 active site clefts [active] 1150469005552 zinc binding site [ion binding]; other site 1150469005553 dimer interface [polypeptide binding]; other site 1150469005554 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1150469005555 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 1150469005556 dimer interface [polypeptide binding]; other site 1150469005557 phosphorylation site [posttranslational modification] 1150469005558 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 1150469005559 ATP binding site [chemical binding]; other site 1150469005560 Mg2+ binding site [ion binding]; other site 1150469005561 G-X-G motif; other site 1150469005562 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 1150469005563 Isochorismatase family; Region: Isochorismatase; pfam00857 1150469005564 catalytic triad [active] 1150469005565 conserved cis-peptide bond; other site 1150469005566 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 1150469005567 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1150469005568 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1150469005569 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 1150469005570 active site 1 [active] 1150469005571 active site 2 [active] 1150469005572 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 1150469005573 active site 1150469005574 contig_105 1150469005575 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1150469005576 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 1150469005577 FeS/SAM binding site; other site 1150469005578 HemN C-terminal domain; Region: HemN_C; pfam06969 1150469005579 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1150469005580 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1150469005581 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1150469005582 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1150469005583 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1150469005584 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1150469005585 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1150469005586 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1150469005587 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1150469005588 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1150469005589 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 1150469005590 putative active site [active] 1150469005591 putative catalytic site [active] 1150469005592 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 1150469005593 putative active site [active] 1150469005594 putative catalytic site [active] 1150469005595 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1150469005596 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 1150469005597 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469005598 dimer interface [polypeptide binding]; other site 1150469005599 putative CheW interface [polypeptide binding]; other site 1150469005600 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 1150469005601 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 1150469005602 ATP binding site [chemical binding]; other site 1150469005603 putative Mg++ binding site [ion binding]; other site 1150469005604 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 1150469005605 nucleotide binding region [chemical binding]; other site 1150469005606 ATP-binding site [chemical binding]; other site 1150469005607 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1150469005608 active site 1150469005609 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1150469005610 DNA protecting protein DprA; Region: dprA; TIGR00732 1150469005611 contig_138 1150469005612 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 1150469005613 contig_152 1150469005614 contig_165 1150469005615 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 1150469005616 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1150469005617 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1150469005618 Fic family protein [Function unknown]; Region: COG3177 1150469005619 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 1150469005620 Fic/DOC family; Region: Fic; pfam02661 1150469005621 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 1150469005622 putative DNA binding site [nucleotide binding]; other site 1150469005623 putative Zn2+ binding site [ion binding]; other site 1150469005624 contig_136 1150469005625 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1150469005626 Domain of unknown function DUF21; Region: DUF21; pfam01595 1150469005627 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 1150469005628 Transporter associated domain; Region: CorC_HlyC; smart01091 1150469005629 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 1150469005630 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1150469005631 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 1150469005632 active site 1150469005633 phosphorylation site [posttranslational modification] 1150469005634 intermolecular recognition site; other site 1150469005635 dimerization interface [polypeptide binding]; other site 1150469005636 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1150469005637 Zn2+ binding site [ion binding]; other site 1150469005638 Mg2+ binding site [ion binding]; other site 1150469005639 PAS domain S-box; Region: sensory_box; TIGR00229 1150469005640 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 1150469005641 putative active site [active] 1150469005642 heme pocket [chemical binding]; other site 1150469005643 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 1150469005644 PAS domain; Region: PAS_9; pfam13426 1150469005645 putative active site [active] 1150469005646 heme pocket [chemical binding]; other site 1150469005647 PAS fold; Region: PAS_4; pfam08448 1150469005648 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 1150469005649 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1150469005650 putative active site [active] 1150469005651 heme pocket [chemical binding]; other site 1150469005652 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 1150469005653 dimer interface [polypeptide binding]; other site 1150469005654 phosphorylation site [posttranslational modification] 1150469005655 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 1150469005656 ATP binding site [chemical binding]; other site 1150469005657 Mg2+ binding site [ion binding]; other site 1150469005658 G-X-G motif; other site 1150469005659 Response regulator receiver domain; Region: Response_reg; pfam00072 1150469005660 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 1150469005661 active site 1150469005662 phosphorylation site [posttranslational modification] 1150469005663 intermolecular recognition site; other site 1150469005664 dimerization interface [polypeptide binding]; other site 1150469005665 Response regulator receiver domain; Region: Response_reg; pfam00072 1150469005666 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 1150469005667 active site 1150469005668 phosphorylation site [posttranslational modification] 1150469005669 intermolecular recognition site; other site 1150469005670 dimerization interface [polypeptide binding]; other site 1150469005671 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 1150469005672 contig_101 1150469005673 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1150469005674 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 1150469005675 contig_166 1150469005676 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 1150469005677 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1150469005678 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1150469005679 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1150469005680 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1150469005681 putative active site [active] 1150469005682 putative metal binding site [ion binding]; other site 1150469005683 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1150469005684 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_2; cd03814 1150469005685 contig_177 1150469005686 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 1150469005687 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1150469005688 acyl-activating enzyme (AAE) consensus motif; other site 1150469005689 active site 1150469005690 AMP binding site [chemical binding]; other site 1150469005691 CoA binding site [chemical binding]; other site 1150469005692 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 1150469005693 PAS domain S-box; Region: sensory_box; TIGR00229 1150469005694 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 1150469005695 putative active site [active] 1150469005696 heme pocket [chemical binding]; other site 1150469005697 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469005698 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469005699 metal binding site [ion binding]; metal-binding site 1150469005700 active site 1150469005701 I-site; other site 1150469005702 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 1150469005703 Zinc-finger domain; Region: zf-CHCC; pfam10276 1150469005704 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1150469005705 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469005706 Walker A/P-loop; other site 1150469005707 ATP binding site [chemical binding]; other site 1150469005708 Q-loop/lid; other site 1150469005709 ABC transporter signature motif; other site 1150469005710 Walker B; other site 1150469005711 D-loop; other site 1150469005712 H-loop/switch region; other site 1150469005713 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1150469005714 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1150469005715 PGAP1-like protein; Region: PGAP1; pfam07819 1150469005716 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1150469005717 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1150469005718 catalytic triad [active] 1150469005719 Cupin domain; Region: Cupin_2; pfam07883 1150469005720 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 1150469005721 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 1150469005722 S-adenosylmethionine binding site [chemical binding]; other site 1150469005723 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1150469005724 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1150469005725 RF-1 domain; Region: RF-1; pfam00472 1150469005726 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1150469005727 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1150469005728 tRNA; other site 1150469005729 putative tRNA binding site [nucleotide binding]; other site 1150469005730 putative NADP binding site [chemical binding]; other site 1150469005731 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1150469005732 histidyl-tRNA synthetase; Region: hisS; TIGR00442 1150469005733 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 1150469005734 dimer interface [polypeptide binding]; other site 1150469005735 motif 1; other site 1150469005736 active site 1150469005737 motif 2; other site 1150469005738 motif 3; other site 1150469005739 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 1150469005740 anticodon binding site; other site 1150469005741 contig_181 1150469005742 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1150469005743 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 1150469005744 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1150469005745 catalytic residues [active] 1150469005746 central insert; other site 1150469005747 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1150469005748 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 1150469005749 heme exporter protein CcmD; Region: cytochro_ccmD; TIGR03141 1150469005750 heme exporter protein CcmC; Region: ccmC; TIGR01191 1150469005751 CcmB protein; Region: CcmB; pfam03379 1150469005752 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 1150469005753 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469005754 Walker A/P-loop; other site 1150469005755 ATP binding site [chemical binding]; other site 1150469005756 Q-loop/lid; other site 1150469005757 ABC transporter signature motif; other site 1150469005758 Walker B; other site 1150469005759 D-loop; other site 1150469005760 H-loop/switch region; other site 1150469005761 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 1150469005762 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 1150469005763 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1150469005764 contig_15 1150469005765 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1150469005766 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1150469005767 NAD(P) binding site [chemical binding]; other site 1150469005768 active site 1150469005769 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1150469005770 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 1150469005771 putative ligand binding site [chemical binding]; other site 1150469005772 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1150469005773 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1150469005774 TM-ABC transporter signature motif; other site 1150469005775 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1150469005776 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1150469005777 TM-ABC transporter signature motif; other site 1150469005778 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1150469005779 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1150469005780 Walker A/P-loop; other site 1150469005781 ATP binding site [chemical binding]; other site 1150469005782 Q-loop/lid; other site 1150469005783 ABC transporter signature motif; other site 1150469005784 Walker B; other site 1150469005785 D-loop; other site 1150469005786 H-loop/switch region; other site 1150469005787 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1150469005788 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1150469005789 SelR domain; Region: SelR; pfam01641 1150469005790 Cache domain; Region: Cache_1; pfam02743 1150469005791 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1150469005792 HAMP domain; Region: HAMP; pfam00672 1150469005793 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469005794 dimer interface [polypeptide binding]; other site 1150469005795 putative CheW interface [polypeptide binding]; other site 1150469005796 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 1150469005797 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 1150469005798 dimerization interface [polypeptide binding]; other site 1150469005799 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469005800 dimer interface [polypeptide binding]; other site 1150469005801 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1150469005802 putative CheW interface [polypeptide binding]; other site 1150469005803 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1150469005804 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 1150469005805 active site 1150469005806 phosphorylation site [posttranslational modification] 1150469005807 intermolecular recognition site; other site 1150469005808 dimerization interface [polypeptide binding]; other site 1150469005809 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 1150469005810 DNA binding site [nucleotide binding] 1150469005811 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 1150469005812 dimerization interface [polypeptide binding]; other site 1150469005813 PAS fold; Region: PAS_7; pfam12860 1150469005814 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 1150469005815 putative active site [active] 1150469005816 heme pocket [chemical binding]; other site 1150469005817 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; cl00080 1150469005818 dimer interface [polypeptide binding]; other site 1150469005819 phosphorylation site [posttranslational modification] 1150469005820 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 1150469005821 ATP binding site [chemical binding]; other site 1150469005822 Mg2+ binding site [ion binding]; other site 1150469005823 G-X-G motif; other site 1150469005824 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 1150469005825 phosphorylation site [posttranslational modification] 1150469005826 intermolecular recognition site; other site 1150469005827 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1150469005828 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 1150469005829 active site 1150469005830 phosphorylation site [posttranslational modification] 1150469005831 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 1150469005832 dimerization domain swap beta strand [polypeptide binding]; other site 1150469005833 regulatory protein interface [polypeptide binding]; other site 1150469005834 active site 1150469005835 regulatory phosphorylation site [posttranslational modification]; other site 1150469005836 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1150469005837 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1150469005838 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1150469005839 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1150469005840 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1150469005841 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 1150469005842 putative substrate binding site [chemical binding]; other site 1150469005843 putative ATP binding site [chemical binding]; other site 1150469005844 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 1150469005845 active site 1150469005846 P-loop; other site 1150469005847 phosphorylation site [posttranslational modification] 1150469005848 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 1150469005849 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 1150469005850 active site 1150469005851 P-loop; other site 1150469005852 phosphorylation site [posttranslational modification] 1150469005853 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 1150469005854 AAK_UMPK-MosAB: This CD includes the alpha and beta subunits of the Mo storage protein (MosA and MosB) which are related to uridine monophosphate kinase (UMPK) enzymes that catalyze the phosphorylation of UMP by ATP, yielding UDP, and playing a key role...; Region: AAK_UMPK-MosAB; cd04255 1150469005855 putative nucleotide binding site [chemical binding]; other site 1150469005856 putative substrate binding site [chemical binding]; other site 1150469005857 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 1150469005858 nucleotide binding site [chemical binding]; other site 1150469005859 substrate binding site [chemical binding]; other site 1150469005860 FecR protein; Region: FecR; pfam04773 1150469005861 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1150469005862 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1150469005863 contig_126 1150469005864 Predicted ATPase [General function prediction only]; Region: COG5293 1150469005865 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 1150469005866 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1150469005867 MULE transposase domain; Region: MULE; pfam10551 1150469005868 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 1150469005869 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 1150469005870 contig_176 1150469005871 DDE superfamily endonuclease; Region: DDE_4; cl17710 1150469005872 Transposase domain (DUF772); Region: DUF772; pfam05598 1150469005873 MULE transposase domain; Region: MULE; pfam10551 1150469005874 contig_180 1150469005875 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 1150469005876 Ligand Binding Site [chemical binding]; other site 1150469005877 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 1150469005878 active site residue [active] 1150469005879 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 1150469005880 CPxP motif; other site 1150469005881 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1150469005882 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1150469005883 contig_168 1150469005884 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 1150469005885 dimer interface [polypeptide binding]; other site 1150469005886 conserved gate region; other site 1150469005887 ABC-ATPase subunit interface; other site 1150469005888 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1150469005889 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1150469005890 Walker A/P-loop; other site 1150469005891 ATP binding site [chemical binding]; other site 1150469005892 Q-loop/lid; other site 1150469005893 ABC transporter signature motif; other site 1150469005894 Walker B; other site 1150469005895 D-loop; other site 1150469005896 H-loop/switch region; other site 1150469005897 NIL domain; Region: NIL; pfam09383 1150469005898 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 1150469005899 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1150469005900 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1150469005901 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1150469005902 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 1150469005903 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1150469005904 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1150469005905 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 1150469005906 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 1150469005907 P loop; other site 1150469005908 GTP binding site [chemical binding]; other site 1150469005909 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1150469005910 Cupin domain; Region: Cupin_2; pfam07883 1150469005911 Response regulator receiver domain; Region: Response_reg; pfam00072 1150469005912 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 1150469005913 active site 1150469005914 phosphorylation site [posttranslational modification] 1150469005915 intermolecular recognition site; other site 1150469005916 dimerization interface [polypeptide binding]; other site 1150469005917 HD domain; Region: HD_5; pfam13487 1150469005918 Response regulator receiver domain; Region: Response_reg; pfam00072 1150469005919 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 1150469005920 active site 1150469005921 phosphorylation site [posttranslational modification] 1150469005922 intermolecular recognition site; other site 1150469005923 dimerization interface [polypeptide binding]; other site 1150469005924 HDOD domain; Region: HDOD; pfam08668 1150469005925 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 1150469005926 PAS fold; Region: PAS_3; pfam08447 1150469005927 putative active site [active] 1150469005928 heme pocket [chemical binding]; other site 1150469005929 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 1150469005930 PAS domain; Region: PAS_9; pfam13426 1150469005931 putative active site [active] 1150469005932 heme pocket [chemical binding]; other site 1150469005933 PAS fold; Region: PAS_7; pfam12860 1150469005934 PAS domain; Region: PAS; smart00091 1150469005935 PAS fold; Region: PAS_4; pfam08448 1150469005936 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 1150469005937 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 1150469005938 ATP binding site [chemical binding]; other site 1150469005939 Mg2+ binding site [ion binding]; other site 1150469005940 G-X-G motif; other site 1150469005941 contig_187 1150469005942 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1150469005943 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 1150469005944 P-loop; other site 1150469005945 Magnesium ion binding site [ion binding]; other site 1150469005946 contig_119 1150469005947 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 1150469005948 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1150469005949 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 1150469005950 putative ligand binding site [chemical binding]; other site 1150469005951 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1150469005952 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1150469005953 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 1150469005954 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1150469005955 active site 1150469005956 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1150469005957 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1150469005958 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1150469005959 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1150469005960 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1150469005961 Predicted transcriptional regulators [Transcription]; Region: COG1695 1150469005962 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1150469005963 CheD chemotactic sensory transduction; Region: CheD; cl00810 1150469005964 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1150469005965 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1150469005966 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1150469005967 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1150469005968 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1150469005969 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1150469005970 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1150469005971 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1150469005972 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 1150469005973 glutaminase active site [active] 1150469005974 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 1150469005975 dimer interface [polypeptide binding]; other site 1150469005976 active site 1150469005977 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 1150469005978 dimer interface [polypeptide binding]; other site 1150469005979 active site 1150469005980 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1150469005981 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1150469005982 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 1150469005983 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1150469005984 Protein of unknown function (DUF3018); Region: DUF3018; pfam11455 1150469005985 PemK-like protein; Region: PemK; pfam02452 1150469005986 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 1150469005987 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 1150469005988 contig_201 1150469005989 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1150469005990 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1150469005991 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1150469005992 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1150469005993 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1150469005994 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1150469005995 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1150469005996 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1150469005997 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 1150469005998 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 1150469005999 active site 1150469006000 catalytic residues [active] 1150469006001 metal binding site [ion binding]; metal-binding site 1150469006002 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1150469006003 contig_200 1150469006004 translocation protein TolB; Provisional; Region: tolB; PRK05137 1150469006005 TolB amino-terminal domain; Region: TolB_N; pfam04052 1150469006006 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1150469006007 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1150469006008 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1150469006009 ligand binding site [chemical binding]; other site 1150469006010 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1150469006011 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 1150469006012 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1150469006013 Ligand Binding Site [chemical binding]; other site 1150469006014 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 1150469006015 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1150469006016 Protein of unknown function; Region: DUF3971; pfam13116 1150469006017 contig_189 1150469006018 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1150469006019 TolR protein; Region: tolR; TIGR02801 1150469006020 TolQ protein; Region: tolQ; TIGR02796 1150469006021 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 1150469006022 active site 1150469006023 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1150469006024 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 1150469006025 Walker A motif; other site 1150469006026 ATP binding site [chemical binding]; other site 1150469006027 Walker B motif; other site 1150469006028 arginine finger; other site 1150469006029 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1150469006030 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1150469006031 RuvA N terminal domain; Region: RuvA_N; pfam01330 1150469006032 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1150469006033 Holliday junction resolvase; Reviewed; Region: ruvC; PRK00039 1150469006034 active site 1150469006035 putative DNA-binding cleft [nucleotide binding]; other site 1150469006036 dimer interface [polypeptide binding]; other site 1150469006037 hypothetical protein; Validated; Region: PRK00110 1150469006038 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1150469006039 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 1150469006040 active site 1150469006041 DNA binding site [nucleotide binding] 1150469006042 Int/Topo IB signature motif; other site 1150469006043 Protein of unknown function, DUF484; Region: DUF484; cl17449 1150469006044 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1150469006045 active site 1150469006046 intersubunit interactions; other site 1150469006047 catalytic residue [active] 1150469006048 contig_171 1150469006049 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 1150469006050 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 1150469006051 putative hydrophobic ligand binding site [chemical binding]; other site 1150469006052 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1150469006053 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 1150469006054 Mg2+ binding site [ion binding]; other site 1150469006055 G-X-G motif; other site 1150469006056 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 1150469006057 anchoring element; other site 1150469006058 dimer interface [polypeptide binding]; other site 1150469006059 ATP binding site [chemical binding]; other site 1150469006060 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 1150469006061 active site 1150469006062 putative metal-binding site [ion binding]; other site 1150469006063 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1150469006064 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 1150469006065 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1150469006066 ligand binding site [chemical binding]; other site 1150469006067 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1150469006068 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469006069 dimer interface [polypeptide binding]; other site 1150469006070 putative CheW interface [polypeptide binding]; other site 1150469006071 contig_25 1150469006072 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 1150469006073 contig_182 1150469006074 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 1150469006075 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 1150469006076 dimer interface [polypeptide binding]; other site 1150469006077 phosphorylation site [posttranslational modification] 1150469006078 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 1150469006079 ATP binding site [chemical binding]; other site 1150469006080 Mg2+ binding site [ion binding]; other site 1150469006081 G-X-G motif; other site 1150469006082 Response regulator receiver domain; Region: Response_reg; pfam00072 1150469006083 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 1150469006084 active site 1150469006085 phosphorylation site [posttranslational modification] 1150469006086 intermolecular recognition site; other site 1150469006087 dimerization interface [polypeptide binding]; other site 1150469006088 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 1150469006089 putative binding surface; other site 1150469006090 active site 1150469006091 Cache domain; Region: Cache_1; pfam02743 1150469006092 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1150469006093 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 1150469006094 dimer interface [polypeptide binding]; other site 1150469006095 phosphorylation site [posttranslational modification] 1150469006096 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 1150469006097 ATP binding site [chemical binding]; other site 1150469006098 Mg2+ binding site [ion binding]; other site 1150469006099 G-X-G motif; other site 1150469006100 Response regulator receiver domain; Region: Response_reg; pfam00072 1150469006101 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 1150469006102 active site 1150469006103 phosphorylation site [posttranslational modification] 1150469006104 intermolecular recognition site; other site 1150469006105 dimerization interface [polypeptide binding]; other site 1150469006106 contig_157 1150469006107 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; cl08294 1150469006108 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1150469006109 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 1150469006110 interface (dimer of trimers) [polypeptide binding]; other site 1150469006111 Substrate-binding/catalytic site; other site 1150469006112 Zn-binding sites [ion binding]; other site 1150469006113 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 1150469006114 Ribonuclease P; Region: Ribonuclease_P; pfam00825 1150469006115 Haemolytic domain; Region: Haemolytic; pfam01809 1150469006116 membrane protein insertase; Provisional; Region: PRK01318 1150469006117 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1150469006118 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1150469006119 G1 box; other site 1150469006120 GTP/Mg2+ binding site [chemical binding]; other site 1150469006121 Switch I region; other site 1150469006122 G2 box; other site 1150469006123 G3 box; other site 1150469006124 Switch II region; other site 1150469006125 G4 box; other site 1150469006126 G5 box; other site 1150469006127 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 1150469006128 feedback inhibition sensing region; other site 1150469006129 homohexameric interface [polypeptide binding]; other site 1150469006130 nucleotide binding site [chemical binding]; other site 1150469006131 N-acetyl-L-glutamate binding site [chemical binding]; other site 1150469006132 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 1150469006133 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 1150469006134 motif II; other site 1150469006135 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 1150469006136 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 1150469006137 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1150469006138 catalytic residues [active] 1150469006139 cobyric acid synthase; Provisional; Region: PRK00784 1150469006140 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 1150469006141 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1150469006142 catalytic triad [active] 1150469006143 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1150469006144 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1150469006145 putative NAD(P) binding site [chemical binding]; other site 1150469006146 Rrf2 family protein; Region: rrf2_super; TIGR00738 1150469006147 Transcriptional regulator; Region: Rrf2; pfam02082 1150469006148 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; cl02542 1150469006149 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 1150469006150 putative active site [active] 1150469006151 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 1150469006152 PAS fold; Region: PAS_3; pfam08447 1150469006153 putative active site [active] 1150469006154 heme pocket [chemical binding]; other site 1150469006155 PAS domain S-box; Region: sensory_box; TIGR00229 1150469006156 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 1150469006157 putative active site [active] 1150469006158 heme pocket [chemical binding]; other site 1150469006159 PAS domain S-box; Region: sensory_box; TIGR00229 1150469006160 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 1150469006161 putative active site [active] 1150469006162 heme pocket [chemical binding]; other site 1150469006163 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469006164 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469006165 metal binding site [ion binding]; metal-binding site 1150469006166 active site 1150469006167 I-site; other site 1150469006168 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 1150469006169 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1150469006170 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1150469006171 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1150469006172 Walker A/P-loop; other site 1150469006173 ATP binding site [chemical binding]; other site 1150469006174 Q-loop/lid; other site 1150469006175 ABC transporter signature motif; other site 1150469006176 Walker B; other site 1150469006177 D-loop; other site 1150469006178 H-loop/switch region; other site 1150469006179 Uncharacterized conserved protein [Function unknown]; Region: COG1872 1150469006180 YGGT family; Region: YGGT; pfam02325 1150469006181 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1150469006182 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 1150469006183 putative active site [active] 1150469006184 heme pocket [chemical binding]; other site 1150469006185 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 1150469006186 PAS fold; Region: PAS_3; pfam08447 1150469006187 putative active site [active] 1150469006188 heme pocket [chemical binding]; other site 1150469006189 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 1150469006190 dimer interface [polypeptide binding]; other site 1150469006191 phosphorylation site [posttranslational modification] 1150469006192 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 1150469006193 ATP binding site [chemical binding]; other site 1150469006194 Mg2+ binding site [ion binding]; other site 1150469006195 G-X-G motif; other site 1150469006196 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1150469006197 putative active site [active] 1150469006198 putative metal binding residues [ion binding]; other site 1150469006199 signature motif; other site 1150469006200 putative triphosphate binding site [ion binding]; other site 1150469006201 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 1150469006202 Lysine efflux permease [General function prediction only]; Region: COG1279 1150469006203 Rrf2 family protein; Region: rrf2_super; TIGR00738 1150469006204 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 1150469006205 putative Zn2+ binding site [ion binding]; other site 1150469006206 putative DNA binding site [nucleotide binding]; other site 1150469006207 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1150469006208 Coenzyme A binding pocket [chemical binding]; other site 1150469006209 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 1150469006210 gating phenylalanine in ion channel; other site 1150469006211 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1150469006212 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 1150469006213 dimerization interface [polypeptide binding]; other site 1150469006214 hypothetical protein; Provisional; Region: PRK13687 1150469006215 contig_195 1150469006216 contig_147 1150469006217 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 1150469006218 SEC-C motif; Region: SEC-C; pfam02810 1150469006219 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 1150469006220 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1150469006221 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 1150469006222 active site 1150469006223 acyl-activating enzyme (AAE) consensus motif; other site 1150469006224 putative CoA binding site [chemical binding]; other site 1150469006225 AMP binding site [chemical binding]; other site 1150469006226 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 1150469006227 putative active site [active] 1150469006228 YdjC motif; other site 1150469006229 Mg binding site [ion binding]; other site 1150469006230 putative homodimer interface [polypeptide binding]; other site 1150469006231 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1150469006232 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1150469006233 Ligand binding site; other site 1150469006234 Putative Catalytic site; other site 1150469006235 DXD motif; other site 1150469006236 Predicted membrane protein [Function unknown]; Region: COG2246 1150469006237 GtrA-like protein; Region: GtrA; pfam04138 1150469006238 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 1150469006239 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 1150469006240 FeS/SAM binding site; other site 1150469006241 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1150469006242 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1150469006243 ligand binding site [chemical binding]; other site 1150469006244 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1150469006245 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 1150469006246 contig_194 1150469006247 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1150469006248 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1150469006249 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 1150469006250 dimer interface [polypeptide binding]; other site 1150469006251 anticodon binding site; other site 1150469006252 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 1150469006253 homodimer interface [polypeptide binding]; other site 1150469006254 motif 1; other site 1150469006255 active site 1150469006256 motif 2; other site 1150469006257 GAD domain; Region: GAD; pfam02938 1150469006258 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 1150469006259 active site 1150469006260 motif 3; other site 1150469006261 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1150469006262 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 1150469006263 motif II; other site 1150469006264 contig_185 1150469006265 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 1150469006266 Dihaem cytochrome c; Region: DHC; pfam09626 1150469006267 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1150469006268 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1150469006269 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1150469006270 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1150469006271 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1150469006272 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1150469006273 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1150469006274 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469006275 Walker A/P-loop; other site 1150469006276 ATP binding site [chemical binding]; other site 1150469006277 Q-loop/lid; other site 1150469006278 ABC transporter signature motif; other site 1150469006279 Walker B; other site 1150469006280 D-loop; other site 1150469006281 H-loop/switch region; other site 1150469006282 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1150469006283 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1150469006284 putative GEF interaction site [polypeptide binding]; other site 1150469006285 Switch I region; other site 1150469006286 G2 box; other site 1150469006287 G3 box; other site 1150469006288 Switch II region; other site 1150469006289 GTP/Mg2+ binding site [chemical binding]; other site 1150469006290 G4 box; other site 1150469006291 G5 box; other site 1150469006292 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 1150469006293 contig_196 1150469006294 ABC transporter ATPase component; Reviewed; Region: PRK11147 1150469006295 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1150469006296 contig_211 1150469006297 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1150469006298 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 1150469006299 putative ligand binding site [chemical binding]; other site 1150469006300 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1150469006301 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 1150469006302 TM-ABC transporter signature motif; other site 1150469006303 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1150469006304 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 1150469006305 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1150469006306 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 1150469006307 TM-ABC transporter signature motif; other site 1150469006308 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1150469006309 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1150469006310 Walker A/P-loop; other site 1150469006311 ATP binding site [chemical binding]; other site 1150469006312 Q-loop/lid; other site 1150469006313 ABC transporter signature motif; other site 1150469006314 Walker B; other site 1150469006315 D-loop; other site 1150469006316 H-loop/switch region; other site 1150469006317 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1150469006318 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1150469006319 Walker A/P-loop; other site 1150469006320 ATP binding site [chemical binding]; other site 1150469006321 Q-loop/lid; other site 1150469006322 ABC transporter signature motif; other site 1150469006323 Walker B; other site 1150469006324 D-loop; other site 1150469006325 H-loop/switch region; other site 1150469006326 contig_178 1150469006327 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 1150469006328 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1150469006329 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 1150469006330 active site 1150469006331 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 1150469006332 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 1150469006333 motif 1; other site 1150469006334 dimer interface [polypeptide binding]; other site 1150469006335 active site 1150469006336 motif 2; other site 1150469006337 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1150469006338 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 1150469006339 GDP-binding site [chemical binding]; other site 1150469006340 ACT binding site; other site 1150469006341 IMP binding site; other site 1150469006342 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1150469006343 active site 1150469006344 ATP binding site [chemical binding]; other site 1150469006345 substrate binding site [chemical binding]; other site 1150469006346 activation loop (A-loop); other site 1150469006347 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1150469006348 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1150469006349 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1150469006350 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 1150469006351 DNA binding residues [nucleotide binding] 1150469006352 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 1150469006353 MPN+ (JAMM) motif; other site 1150469006354 Zinc-binding site [ion binding]; other site 1150469006355 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1150469006356 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 1150469006357 active site 1150469006358 phosphorylation site [posttranslational modification] 1150469006359 intermolecular recognition site; other site 1150469006360 dimerization interface [polypeptide binding]; other site 1150469006361 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 1150469006362 Walker A motif; other site 1150469006363 ATP binding site [chemical binding]; other site 1150469006364 Walker B motif; other site 1150469006365 arginine finger; other site 1150469006366 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1150469006367 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1150469006368 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469006369 Walker A/P-loop; other site 1150469006370 ATP binding site [chemical binding]; other site 1150469006371 Q-loop/lid; other site 1150469006372 ABC transporter signature motif; other site 1150469006373 Walker B; other site 1150469006374 D-loop; other site 1150469006375 H-loop/switch region; other site 1150469006376 TOBE domain; Region: TOBE; pfam03459 1150469006377 TOBE domain; Region: TOBE_2; pfam08402 1150469006378 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1150469006379 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1150469006380 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 1150469006381 dimer interface [polypeptide binding]; other site 1150469006382 conserved gate region; other site 1150469006383 putative PBP binding loops; other site 1150469006384 ABC-ATPase subunit interface; other site 1150469006385 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1150469006386 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 1150469006387 dimer interface [polypeptide binding]; other site 1150469006388 conserved gate region; other site 1150469006389 putative PBP binding loops; other site 1150469006390 ABC-ATPase subunit interface; other site 1150469006391 rpsU-divergently transcribed protein; Region: diverge_rpsU; TIGR02396 1150469006392 COQ9; Region: COQ9; pfam08511 1150469006393 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 1150469006394 active site 1150469006395 catalytic residues [active] 1150469006396 metal binding site [ion binding]; metal-binding site 1150469006397 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1150469006398 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469006399 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1150469006400 Walker A/P-loop; other site 1150469006401 ATP binding site [chemical binding]; other site 1150469006402 Q-loop/lid; other site 1150469006403 ABC transporter signature motif; other site 1150469006404 Walker B; other site 1150469006405 D-loop; other site 1150469006406 H-loop/switch region; other site 1150469006407 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1150469006408 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 1150469006409 dimer interface [polypeptide binding]; other site 1150469006410 conserved gate region; other site 1150469006411 putative PBP binding loops; other site 1150469006412 ABC-ATPase subunit interface; other site 1150469006413 contig_212 1150469006414 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1150469006415 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 1150469006416 TPP-binding site [chemical binding]; other site 1150469006417 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1150469006418 dimer interface [polypeptide binding]; other site 1150469006419 PYR/PP interface [polypeptide binding]; other site 1150469006420 TPP binding site [chemical binding]; other site 1150469006421 contig_145 1150469006422 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1150469006423 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1150469006424 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1150469006425 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1150469006426 GTP1/OBG; Region: GTP1_OBG; pfam01018 1150469006427 Obg GTPase; Region: Obg; cd01898 1150469006428 G1 box; other site 1150469006429 GTP/Mg2+ binding site [chemical binding]; other site 1150469006430 Switch I region; other site 1150469006431 G2 box; other site 1150469006432 G3 box; other site 1150469006433 Switch II region; other site 1150469006434 G4 box; other site 1150469006435 G5 box; other site 1150469006436 gamma-glutamyl kinase; Provisional; Region: PRK05429 1150469006437 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 1150469006438 nucleotide binding site [chemical binding]; other site 1150469006439 homotetrameric interface [polypeptide binding]; other site 1150469006440 putative phosphate binding site [ion binding]; other site 1150469006441 putative allosteric binding site; other site 1150469006442 PUA domain; Region: PUA; pfam01472 1150469006443 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1150469006444 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1150469006445 putative catalytic cysteine [active] 1150469006446 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1150469006447 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1150469006448 active site 1150469006449 (T/H)XGH motif; other site 1150469006450 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1150469006451 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1150469006452 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1150469006453 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1150469006454 substrate binding pocket [chemical binding]; other site 1150469006455 chain length determination region; other site 1150469006456 substrate-Mg2+ binding site; other site 1150469006457 catalytic residues [active] 1150469006458 aspartate-rich region 1; other site 1150469006459 active site lid residues [active] 1150469006460 aspartate-rich region 2; other site 1150469006461 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1150469006462 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 1150469006463 dimer interface [polypeptide binding]; other site 1150469006464 motif 1; other site 1150469006465 active site 1150469006466 motif 2; other site 1150469006467 motif 3; other site 1150469006468 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1150469006469 pyruvate phosphate dikinase; Provisional; Region: PRK09279 1150469006470 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1150469006471 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1150469006472 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1150469006473 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1150469006474 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 1150469006475 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1150469006476 G4 box; other site 1150469006477 G5 box; other site 1150469006478 Predicted permeases [General function prediction only]; Region: COG0795 1150469006479 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1150469006480 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1150469006481 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1150469006482 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469006483 Walker A/P-loop; other site 1150469006484 ATP binding site [chemical binding]; other site 1150469006485 Q-loop/lid; other site 1150469006486 ABC transporter signature motif; other site 1150469006487 Walker B; other site 1150469006488 D-loop; other site 1150469006489 H-loop/switch region; other site 1150469006490 threonine and homoserine efflux system; Provisional; Region: PRK10532 1150469006491 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 1150469006492 putative catalytic residue [active] 1150469006493 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1150469006494 Flavoprotein; Region: Flavoprotein; pfam02441 1150469006495 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1150469006496 FixH; Region: FixH; pfam05751 1150469006497 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 1150469006498 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 1150469006499 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1150469006500 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1150469006501 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 1150469006502 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 1150469006503 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 1150469006504 ligand binding site [chemical binding]; other site 1150469006505 flexible hinge region; other site 1150469006506 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 1150469006507 putative switch regulator; other site 1150469006508 non-specific DNA interactions [nucleotide binding]; other site 1150469006509 DNA binding site [nucleotide binding] 1150469006510 sequence specific DNA binding site [nucleotide binding]; other site 1150469006511 putative cAMP binding site [chemical binding]; other site 1150469006512 DNA polymerase III subunit chi; Validated; Region: PRK05728 1150469006513 contig_203 1150469006514 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1150469006515 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 1150469006516 active site 1150469006517 phosphorylation site [posttranslational modification] 1150469006518 intermolecular recognition site; other site 1150469006519 dimerization interface [polypeptide binding]; other site 1150469006520 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 1150469006521 DNA binding site [nucleotide binding] 1150469006522 Protein of unknown function (DUF330); Region: DUF330; cl01135 1150469006523 contig_214 1150469006524 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 1150469006525 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1150469006526 PYR/PP interface [polypeptide binding]; other site 1150469006527 TPP binding site [chemical binding]; other site 1150469006528 dimer interface [polypeptide binding]; other site 1150469006529 substrate binding site [chemical binding]; other site 1150469006530 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 1150469006531 TPP-binding site; other site 1150469006532 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 1150469006533 contig_112 1150469006534 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1150469006535 diiron binding motif [ion binding]; other site 1150469006536 Predicted membrane protein (DUF2142); Region: DUF2142; pfam09913 1150469006537 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1150469006538 Ligand binding site; other site 1150469006539 Putative Catalytic site; other site 1150469006540 DXD motif; other site 1150469006541 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1150469006542 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1150469006543 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 1150469006544 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1150469006545 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 1150469006546 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1150469006547 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1150469006548 catalytic residue [active] 1150469006549 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 1150469006550 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 1150469006551 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1150469006552 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1150469006553 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1150469006554 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1150469006555 2-isopropylmalate synthase; Validated; Region: PRK03739 1150469006556 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1150469006557 active site 1150469006558 catalytic residues [active] 1150469006559 metal binding site [ion binding]; metal-binding site 1150469006560 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1150469006561 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1150469006562 Helix-turn-helix domain; Region: HTH_18; pfam12833 1150469006563 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1150469006564 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 1150469006565 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 1150469006566 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1150469006567 LrgA family; Region: LrgA; pfam03788 1150469006568 LrgB-like family; Region: LrgB; cl00596 1150469006569 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 1150469006570 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 1150469006571 FeS/SAM binding site; other site 1150469006572 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 1150469006573 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1150469006574 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1150469006575 Response regulator receiver domain; Region: Response_reg; pfam00072 1150469006576 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 1150469006577 active site 1150469006578 phosphorylation site [posttranslational modification] 1150469006579 intermolecular recognition site; other site 1150469006580 dimerization interface [polypeptide binding]; other site 1150469006581 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 1150469006582 contig_193 1150469006583 Src homology 2 (SH2) domain; Region: SH2; cl15255 1150469006584 phosphotyrosine binding pocket [polypeptide binding]; other site 1150469006585 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 1150469006586 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 1150469006587 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1150469006588 substrate binding site; other site 1150469006589 dimer interface; other site 1150469006590 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 1150469006591 homotrimer interaction site [polypeptide binding]; other site 1150469006592 zinc binding site [ion binding]; other site 1150469006593 CDP-binding sites; other site 1150469006594 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1150469006595 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1150469006596 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 1150469006597 FMN binding site [chemical binding]; other site 1150469006598 active site 1150469006599 catalytic residues [active] 1150469006600 substrate binding site [chemical binding]; other site 1150469006601 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 1150469006602 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 1150469006603 dimer interface [polypeptide binding]; other site 1150469006604 phosphorylation site [posttranslational modification] 1150469006605 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 1150469006606 ATP binding site [chemical binding]; other site 1150469006607 Mg2+ binding site [ion binding]; other site 1150469006608 G-X-G motif; other site 1150469006609 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1150469006610 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 1150469006611 active site 1150469006612 phosphorylation site [posttranslational modification] 1150469006613 intermolecular recognition site; other site 1150469006614 dimerization interface [polypeptide binding]; other site 1150469006615 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 1150469006616 Walker A motif; other site 1150469006617 ATP binding site [chemical binding]; other site 1150469006618 Walker B motif; other site 1150469006619 arginine finger; other site 1150469006620 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1150469006621 contig_209 1150469006622 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1150469006623 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1150469006624 NAD(P) binding site [chemical binding]; other site 1150469006625 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1150469006626 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1150469006627 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 1150469006628 RNA binding surface [nucleotide binding]; other site 1150469006629 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1150469006630 transmembrane helices; other site 1150469006631 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1150469006632 contig_21 1150469006633 DDE superfamily endonuclease; Region: DDE_4; cl17710 1150469006634 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1150469006635 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1150469006636 MULE transposase domain; Region: MULE; pfam10551 1150469006637 Protein of unknown function (DUF736); Region: DUF736; pfam05284 1150469006638 Helix-turn-helix domain; Region: HTH_17; pfam12728 1150469006639 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 1150469006640 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 1150469006641 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1150469006642 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 1150469006643 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1150469006644 catalytic residue [active] 1150469006645 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 1150469006646 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 1150469006647 Domain of unknown function DUF87; Region: DUF87; pfam01935 1150469006648 AAA-like domain; Region: AAA_10; pfam12846 1150469006649 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 1150469006650 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 1150469006651 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 1150469006652 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 1150469006653 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 1150469006654 Walker A motif; other site 1150469006655 ATP binding site [chemical binding]; other site 1150469006656 Walker B motif; other site 1150469006657 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 1150469006658 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1150469006659 ATP binding site [chemical binding]; other site 1150469006660 Walker A motif; other site 1150469006661 hexamer interface [polypeptide binding]; other site 1150469006662 Walker B motif; other site 1150469006663 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 1150469006664 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 1150469006665 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 1150469006666 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1150469006667 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469006668 Walker B; other site 1150469006669 D-loop; other site 1150469006670 H-loop/switch region; other site 1150469006671 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 1150469006672 conjugal transfer protein TrbL; Provisional; Region: PRK13875 1150469006673 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 1150469006674 Transposase domain (DUF772); Region: DUF772; pfam05598 1150469006675 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1150469006676 DDE superfamily endonuclease; Region: DDE_4; cl17710 1150469006677 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1150469006678 active site residue [active] 1150469006679 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1150469006680 active site residue [active] 1150469006681 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1150469006682 active site residue [active] 1150469006683 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1150469006684 active site residue [active] 1150469006685 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 1150469006686 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1150469006687 substrate binding pocket [chemical binding]; other site 1150469006688 membrane-bound complex binding site; other site 1150469006689 hinge residues; other site 1150469006690 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1150469006691 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 1150469006692 substrate binding pocket [chemical binding]; other site 1150469006693 membrane-bound complex binding site; other site 1150469006694 hinge residues; other site 1150469006695 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1150469006696 FAD binding domain; Region: FAD_binding_4; pfam01565 1150469006697 aspartate aminotransferase; Provisional; Region: PRK06107 1150469006698 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 1150469006699 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1150469006700 homodimer interface [polypeptide binding]; other site 1150469006701 catalytic residue [active] 1150469006702 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 1150469006703 dimer interface [polypeptide binding]; other site 1150469006704 conserved gate region; other site 1150469006705 putative PBP binding loops; other site 1150469006706 ABC-ATPase subunit interface; other site 1150469006707 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1150469006708 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 1150469006709 dimer interface [polypeptide binding]; other site 1150469006710 conserved gate region; other site 1150469006711 putative PBP binding loops; other site 1150469006712 ABC-ATPase subunit interface; other site 1150469006713 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1150469006714 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1150469006715 Walker A/P-loop; other site 1150469006716 ATP binding site [chemical binding]; other site 1150469006717 Q-loop/lid; other site 1150469006718 ABC transporter signature motif; other site 1150469006719 Walker B; other site 1150469006720 D-loop; other site 1150469006721 H-loop/switch region; other site 1150469006722 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 1150469006723 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 1150469006724 homodimer interface [polypeptide binding]; other site 1150469006725 substrate-cofactor binding pocket; other site 1150469006726 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1150469006727 catalytic residue [active] 1150469006728 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 1150469006729 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 1150469006730 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1150469006731 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 1150469006732 Cupin domain; Region: Cupin_2; pfam07883 1150469006733 Protein of unknown function (DUF1847); Region: DUF1847; pfam08901 1150469006734 NMT1-like family; Region: NMT1_2; pfam13379 1150469006735 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1150469006736 substrate binding pocket [chemical binding]; other site 1150469006737 membrane-bound complex binding site; other site 1150469006738 hinge residues; other site 1150469006739 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1150469006740 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1150469006741 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1150469006742 Walker A/P-loop; other site 1150469006743 ATP binding site [chemical binding]; other site 1150469006744 Q-loop/lid; other site 1150469006745 ABC transporter signature motif; other site 1150469006746 Walker B; other site 1150469006747 D-loop; other site 1150469006748 H-loop/switch region; other site 1150469006749 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 1150469006750 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 1150469006751 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1150469006752 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 1150469006753 tetramer interface [polypeptide binding]; other site 1150469006754 active site 1150469006755 Mg2+/Mn2+ binding site [ion binding]; other site 1150469006756 citrate synthase; Provisional; Region: PRK14033 1150469006757 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 1150469006758 oxalacetate binding site [chemical binding]; other site 1150469006759 citrylCoA binding site [chemical binding]; other site 1150469006760 coenzyme A binding site [chemical binding]; other site 1150469006761 catalytic triad [active] 1150469006762 TIR domain; Region: TIR_2; pfam13676 1150469006763 NB-ARC domain; Region: NB-ARC; pfam00931 1150469006764 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1150469006765 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 1150469006766 binding surface 1150469006767 TPR motif; other site 1150469006768 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1150469006769 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 1150469006770 binding surface 1150469006771 TPR motif; other site 1150469006772 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1150469006773 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1150469006774 TIR domain; Region: TIR_2; pfam13676 1150469006775 putative ssRNA endonuclease; Provisional; Region: PRK11558 1150469006776 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 1150469006777 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 1150469006778 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cl17348 1150469006779 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 1150469006780 CT1975-like protein; Region: Cas_CT1975; pfam09344 1150469006781 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 1150469006782 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 1150469006783 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 1150469006784 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 1150469006785 contig_186 1150469006786 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 1150469006787 dimerization interface [polypeptide binding]; other site 1150469006788 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469006789 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469006790 dimer interface [polypeptide binding]; other site 1150469006791 putative CheW interface [polypeptide binding]; other site 1150469006792 contig_213 1150469006793 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1150469006794 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1150469006795 23S rRNA binding site [nucleotide binding]; other site 1150469006796 L21 binding site [polypeptide binding]; other site 1150469006797 L13 binding site [polypeptide binding]; other site 1150469006798 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1150469006799 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1150469006800 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 1150469006801 dimer interface [polypeptide binding]; other site 1150469006802 motif 1; other site 1150469006803 active site 1150469006804 motif 2; other site 1150469006805 motif 3; other site 1150469006806 contig_142 1150469006807 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1150469006808 Peptidase family M23; Region: Peptidase_M23; pfam01551 1150469006809 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cd01494 1150469006810 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1150469006811 catalytic residue [active] 1150469006812 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 1150469006813 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1150469006814 ligand binding site [chemical binding]; other site 1150469006815 NAD binding site [chemical binding]; other site 1150469006816 dimerization interface [polypeptide binding]; other site 1150469006817 catalytic site [active] 1150469006818 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 1150469006819 putative L-serine binding site [chemical binding]; other site 1150469006820 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1150469006821 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 1150469006822 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1150469006823 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 1150469006824 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 1150469006825 Domain of unknown function (DUF364); Region: DUF364; pfam04016 1150469006826 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 1150469006827 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 1150469006828 dimer interface [polypeptide binding]; other site 1150469006829 active site 1150469006830 aspartate-rich active site metal binding site; other site 1150469006831 allosteric magnesium binding site [ion binding]; other site 1150469006832 Schiff base residues; other site 1150469006833 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 1150469006834 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 1150469006835 homodimer interface [polypeptide binding]; other site 1150469006836 substrate-cofactor binding pocket; other site 1150469006837 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1150469006838 catalytic residue [active] 1150469006839 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1150469006840 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 1150469006841 substrate binding pocket [chemical binding]; other site 1150469006842 FAD binding site [chemical binding]; other site 1150469006843 catalytic base [active] 1150469006844 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1150469006845 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 1150469006846 substrate binding site [chemical binding]; other site 1150469006847 oxyanion hole (OAH) forming residues; other site 1150469006848 trimer interface [polypeptide binding]; other site 1150469006849 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1150469006850 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1150469006851 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1150469006852 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit and related proteins. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of...; Region: RuBisCO_small_like; cl01843 1150469006853 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 1150469006854 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 1150469006855 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1150469006856 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 1150469006857 dimer interface [polypeptide binding]; other site 1150469006858 active site 1150469006859 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1150469006860 folate binding site [chemical binding]; other site 1150469006861 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1150469006862 ATP cone domain; Region: ATP-cone; pfam03477 1150469006863 contig_219 1150469006864 Peptidase family M48; Region: Peptidase_M48; pfam01435 1150469006865 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 1150469006866 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1150469006867 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1150469006868 catalytic residue [active] 1150469006869 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 1150469006870 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 1150469006871 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 1150469006872 metal ion-dependent adhesion site (MIDAS); other site 1150469006873 contig_69 1150469006874 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 1150469006875 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1150469006876 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; cl17393 1150469006877 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1150469006878 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 1150469006879 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 1150469006880 contig_137 1150469006881 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1150469006882 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1150469006883 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1150469006884 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 1150469006885 motif II; other site 1150469006886 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1150469006887 CsbD-like; Region: CsbD; pfam05532 1150469006888 Permease; Region: Permease; pfam02405 1150469006889 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1150469006890 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469006891 Walker A/P-loop; other site 1150469006892 ATP binding site [chemical binding]; other site 1150469006893 Q-loop/lid; other site 1150469006894 ABC transporter signature motif; other site 1150469006895 Walker B; other site 1150469006896 D-loop; other site 1150469006897 H-loop/switch region; other site 1150469006898 mce related protein; Region: MCE; pfam02470 1150469006899 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1150469006900 contig_207 1150469006901 BPG-independent PGAM N-terminus (iPGM_N); Region: iPGM_N; cl17463 1150469006902 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1150469006903 Peptidase family M23; Region: Peptidase_M23; pfam01551 1150469006904 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1150469006905 C-terminal peptidase (prc); Region: prc; TIGR00225 1150469006906 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 1150469006907 protein binding site [polypeptide binding]; other site 1150469006908 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1150469006909 Catalytic dyad [active] 1150469006910 contig_179 1150469006911 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 1150469006912 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1150469006913 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1150469006914 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 1150469006915 putative effector binding pocket; other site 1150469006916 dimerization interface [polypeptide binding]; other site 1150469006917 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1150469006918 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1150469006919 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1150469006920 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1150469006921 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 1150469006922 dimer interface [polypeptide binding]; other site 1150469006923 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1150469006924 catalytic triad [active] 1150469006925 peroxidatic and resolving cysteines [active] 1150469006926 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1150469006927 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1150469006928 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1150469006929 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1150469006930 HlyD family secretion protein; Region: HlyD_3; pfam13437 1150469006931 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1150469006932 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 1150469006933 putative substrate translocation pore; other site 1150469006934 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 1150469006935 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1150469006936 Hpt domain; Region: Hpt; pfam01627 1150469006937 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1150469006938 cheY-homologous receiver domain; Region: REC; smart00448 1150469006939 active site 1150469006940 phosphorylation site [posttranslational modification] 1150469006941 intermolecular recognition site; other site 1150469006942 dimerization interface [polypeptide binding]; other site 1150469006943 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469006944 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469006945 metal binding site [ion binding]; metal-binding site 1150469006946 active site 1150469006947 I-site; other site 1150469006948 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 1150469006949 active site 1150469006950 dimerization interface [polypeptide binding]; other site 1150469006951 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1150469006952 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1150469006953 active site 1150469006954 catalytic site [active] 1150469006955 substrate binding site [chemical binding]; other site 1150469006956 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 1150469006957 FOG: CBS domain [General function prediction only]; Region: COG0517 1150469006958 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1150469006959 metal binding triad; other site 1150469006960 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 1150469006961 contig_218 1150469006962 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1150469006963 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1150469006964 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1150469006965 contig_210 1150469006966 Predicted membrane protein [Function unknown]; Region: COG3212 1150469006967 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1150469006968 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1150469006969 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 1150469006970 active site 1150469006971 phosphorylation site [posttranslational modification] 1150469006972 intermolecular recognition site; other site 1150469006973 dimerization interface [polypeptide binding]; other site 1150469006974 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 1150469006975 DNA binding site [nucleotide binding] 1150469006976 sensor protein PhoQ; Provisional; Region: PRK10815 1150469006977 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 1150469006978 ATP binding site [chemical binding]; other site 1150469006979 Mg2+ binding site [ion binding]; other site 1150469006980 G-X-G motif; other site 1150469006981 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 1150469006982 putative deacylase active site [active] 1150469006983 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 1150469006984 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1150469006985 CysD dimerization site [polypeptide binding]; other site 1150469006986 G1 box; other site 1150469006987 putative GEF interaction site [polypeptide binding]; other site 1150469006988 GTP/Mg2+ binding site [chemical binding]; other site 1150469006989 Switch I region; other site 1150469006990 G2 box; other site 1150469006991 G3 box; other site 1150469006992 Switch II region; other site 1150469006993 G4 box; other site 1150469006994 G5 box; other site 1150469006995 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 1150469006996 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 1150469006997 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 1150469006998 ligand-binding site [chemical binding]; other site 1150469006999 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1150469007000 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 1150469007001 Active Sites [active] 1150469007002 contig_37 1150469007003 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1150469007004 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 1150469007005 homodimer interface [polypeptide binding]; other site 1150469007006 substrate-cofactor binding pocket; other site 1150469007007 catalytic residue [active] 1150469007008 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1150469007009 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 1150469007010 putative DNA binding site [nucleotide binding]; other site 1150469007011 putative Zn2+ binding site [ion binding]; other site 1150469007012 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1150469007013 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 1150469007014 active site 1150469007015 phosphorylation site [posttranslational modification] 1150469007016 intermolecular recognition site; other site 1150469007017 dimerization interface [polypeptide binding]; other site 1150469007018 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 1150469007019 DNA binding site [nucleotide binding] 1150469007020 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 1150469007021 dimerization interface [polypeptide binding]; other site 1150469007022 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 1150469007023 dimer interface [polypeptide binding]; other site 1150469007024 phosphorylation site [posttranslational modification] 1150469007025 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 1150469007026 ATP binding site [chemical binding]; other site 1150469007027 Mg2+ binding site [ion binding]; other site 1150469007028 G-X-G motif; other site 1150469007029 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469007030 putative CheW interface [polypeptide binding]; other site 1150469007031 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1150469007032 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1150469007033 PhnA protein; Region: PhnA; pfam03831 1150469007034 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1150469007035 DNA phosphorothioation-associated putative methyltransferase; Region: dnd_rel_methyl; TIGR04096 1150469007036 Peptidase M15; Region: Peptidase_M15_3; cl01194 1150469007037 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1150469007038 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1150469007039 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 1150469007040 Active Sites [active] 1150469007041 Protein of unknown function (DUF4007); Region: DUF4007; pfam13182 1150469007042 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 1150469007043 catalytic residue [active] 1150469007044 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469007045 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 1150469007046 Walker A/P-loop; other site 1150469007047 ATP binding site [chemical binding]; other site 1150469007048 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1150469007049 PLD-like domain; Region: PLDc_2; pfam13091 1150469007050 putative active site [active] 1150469007051 catalytic site [active] 1150469007052 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 1150469007053 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 1150469007054 ATP binding site [chemical binding]; other site 1150469007055 putative Mg++ binding site [ion binding]; other site 1150469007056 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 1150469007057 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 1150469007058 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 1150469007059 contig_183 1150469007060 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1150469007061 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 1150469007062 substrate binding site [chemical binding]; other site 1150469007063 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 1150469007064 Predicted ATPase [General function prediction only]; Region: COG4637 1150469007065 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469007066 Walker A/P-loop; other site 1150469007067 ATP binding site [chemical binding]; other site 1150469007068 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 1150469007069 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1150469007070 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1150469007071 substrate binding site [chemical binding]; other site 1150469007072 ligand binding site [chemical binding]; other site 1150469007073 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1150469007074 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1150469007075 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14592 1150469007076 RimM N-terminal domain; Region: RimM; pfam01782 1150469007077 PRC-barrel domain; Region: PRC; pfam05239 1150469007078 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1150469007079 signal recognition particle protein; Provisional; Region: PRK10867 1150469007080 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1150469007081 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 1150469007082 P loop; other site 1150469007083 GTP binding site [chemical binding]; other site 1150469007084 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1150469007085 contig_216 1150469007086 Putative transcription activator [Transcription]; Region: TenA; COG0819 1150469007087 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1150469007088 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 1150469007089 catalytic loop [active] 1150469007090 iron binding site [ion binding]; other site 1150469007091 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1150469007092 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1150469007093 contig_223 1150469007094 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 1150469007095 E3 interaction surface; other site 1150469007096 lipoyl attachment site [posttranslational modification]; other site 1150469007097 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1150469007098 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1150469007099 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 1150469007100 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1150469007101 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1150469007102 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1150469007103 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 1150469007104 putative ADP-binding pocket [chemical binding]; other site 1150469007105 ribonuclease R; Region: RNase_R; TIGR02063 1150469007106 RNB domain; Region: RNB; pfam00773 1150469007107 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 1150469007108 RNA binding site [nucleotide binding]; other site 1150469007109 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1150469007110 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 1150469007111 active site 1150469007112 dimerization interface [polypeptide binding]; other site 1150469007113 translation elongation factor P; Region: efp; TIGR00038 1150469007114 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1150469007115 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 1150469007116 RNA binding site [nucleotide binding]; other site 1150469007117 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 1150469007118 RNA binding site [nucleotide binding]; other site 1150469007119 contig_227 1150469007120 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional; Region: PRK11840 1150469007121 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1150469007122 thiS-thiF/thiG interaction site; other site 1150469007123 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 1150469007124 ThiS interaction site; other site 1150469007125 putative active site [active] 1150469007126 tetramer interface [polypeptide binding]; other site 1150469007127 contig_228 1150469007128 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1150469007129 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1150469007130 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469007131 Q-loop/lid; other site 1150469007132 ABC transporter signature motif; other site 1150469007133 Walker B; other site 1150469007134 D-loop; other site 1150469007135 H-loop/switch region; other site 1150469007136 TOBE domain; Region: TOBE; pfam03459 1150469007137 contig_172 1150469007138 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1150469007139 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 1150469007140 active site 1150469007141 phosphorylation site [posttranslational modification] 1150469007142 intermolecular recognition site; other site 1150469007143 dimerization interface [polypeptide binding]; other site 1150469007144 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 1150469007145 DNA binding site [nucleotide binding] 1150469007146 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1150469007147 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 1150469007148 dimerization interface [polypeptide binding]; other site 1150469007149 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 1150469007150 dimer interface [polypeptide binding]; other site 1150469007151 phosphorylation site [posttranslational modification] 1150469007152 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 1150469007153 ATP binding site [chemical binding]; other site 1150469007154 Mg2+ binding site [ion binding]; other site 1150469007155 G-X-G motif; other site 1150469007156 Response regulator receiver domain; Region: Response_reg; pfam00072 1150469007157 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 1150469007158 active site 1150469007159 phosphorylation site [posttranslational modification] 1150469007160 intermolecular recognition site; other site 1150469007161 dimerization interface [polypeptide binding]; other site 1150469007162 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1150469007163 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1150469007164 putative ligand binding site [chemical binding]; other site 1150469007165 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 1150469007166 putative substrate translocation pore; other site 1150469007167 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1150469007168 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 1150469007169 trimer interface [polypeptide binding]; other site 1150469007170 putative metal binding site [ion binding]; other site 1150469007171 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1150469007172 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1150469007173 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 1150469007174 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1150469007175 contig_231 1150469007176 EamA-like transporter family; Region: EamA; pfam00892 1150469007177 contig_234 1150469007178 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1150469007179 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1150469007180 minor groove reading motif; other site 1150469007181 helix-hairpin-helix signature motif; other site 1150469007182 substrate binding pocket [chemical binding]; other site 1150469007183 active site 1150469007184 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1150469007185 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 1150469007186 DNA binding and oxoG recognition site [nucleotide binding] 1150469007187 contig_205 1150469007188 argininosuccinate lyase; Provisional; Region: PRK00855 1150469007189 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1150469007190 active sites [active] 1150469007191 tetramer interface [polypeptide binding]; other site 1150469007192 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 1150469007193 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 1150469007194 TPR motif; other site 1150469007195 binding surface 1150469007196 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 1150469007197 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1150469007198 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 1150469007199 FeS/SAM binding site; other site 1150469007200 contig_206 1150469007201 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 1150469007202 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 1150469007203 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1150469007204 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 1150469007205 N-terminal plug; other site 1150469007206 ligand-binding site [chemical binding]; other site 1150469007207 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1150469007208 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1150469007209 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1150469007210 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1150469007211 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1150469007212 contig_224 1150469007213 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1150469007214 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1150469007215 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1150469007216 lipoyl synthase; Provisional; Region: PRK05481 1150469007217 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 1150469007218 FeS/SAM binding site; other site 1150469007219 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1150469007220 putative coenzyme Q binding site [chemical binding]; other site 1150469007221 contig_2 1150469007222 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 1150469007223 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1150469007224 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; cl17432 1150469007225 substrate binding pocket [chemical binding]; other site 1150469007226 membrane-bound complex binding site; other site 1150469007227 hinge residues; other site 1150469007228 biofilm formation regulator HmsP; Provisional; Region: PRK11829 1150469007229 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469007230 metal binding site [ion binding]; metal-binding site 1150469007231 active site 1150469007232 I-site; other site 1150469007233 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 1150469007234 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1150469007235 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 1150469007236 putative substrate translocation pore; other site 1150469007237 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 1150469007238 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1150469007239 MarR family; Region: MarR_2; cl17246 1150469007240 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 1150469007241 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 1150469007242 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 1150469007243 FeS/SAM binding site; other site 1150469007244 bifunctional preprotein translocase subunit SecD/SecF; Provisional; Region: PRK14726 1150469007245 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1150469007246 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1150469007247 Protein export membrane protein; Region: SecD_SecF; pfam02355 1150469007248 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 1150469007249 GIY-YIG motif/motif A; other site 1150469007250 putative active site [active] 1150469007251 putative metal binding site [ion binding]; other site 1150469007252 DNA methylase; Region: N6_N4_Mtase; pfam01555 1150469007253 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1150469007254 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 1150469007255 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 1150469007256 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1150469007257 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 1150469007258 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 1150469007259 putative active site [active] 1150469007260 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 1150469007261 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 1150469007262 putative MFS family transporter protein; Provisional; Region: PRK03633 1150469007263 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 1150469007264 Transposase domain (DUF772); Region: DUF772; pfam05598 1150469007265 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1150469007266 DDE superfamily endonuclease; Region: DDE_4; cl17710 1150469007267 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1150469007268 Transposase domain (DUF772); Region: DUF772; pfam05598 1150469007269 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1150469007270 DDE superfamily endonuclease; Region: DDE_4; cl17710 1150469007271 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1150469007272 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1150469007273 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1150469007274 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1150469007275 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1150469007276 putative active site [active] 1150469007277 putative substrate binding site [chemical binding]; other site 1150469007278 putative cosubstrate binding site; other site 1150469007279 catalytic site [active] 1150469007280 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 1150469007281 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1150469007282 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 1150469007283 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 1150469007284 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 1150469007285 active site 1150469007286 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; cd00504 1150469007287 domain_subunit interface; other site 1150469007288 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 1150469007289 active site 1150469007290 FMN binding site [chemical binding]; other site 1150469007291 substrate binding site [chemical binding]; other site 1150469007292 3Fe-4S cluster binding site [ion binding]; other site 1150469007293 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 1150469007294 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1150469007295 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1150469007296 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1150469007297 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1150469007298 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 1150469007299 dimerization interface [polypeptide binding]; other site 1150469007300 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469007301 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469007302 dimer interface [polypeptide binding]; other site 1150469007303 putative CheW interface [polypeptide binding]; other site 1150469007304 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469007305 dimer interface [polypeptide binding]; other site 1150469007306 putative CheW interface [polypeptide binding]; other site 1150469007307 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1150469007308 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 1150469007309 substrate binding pocket [chemical binding]; other site 1150469007310 membrane-bound complex binding site; other site 1150469007311 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1150469007312 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 1150469007313 non-specific DNA binding site [nucleotide binding]; other site 1150469007314 salt bridge; other site 1150469007315 sequence-specific DNA binding site [nucleotide binding]; other site 1150469007316 Cupin domain; Region: Cupin_2; pfam07883 1150469007317 lipoate-protein ligase B; Provisional; Region: PRK14341 1150469007318 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 1150469007319 molybdenum transport protein ModD; Provisional; Region: PRK06096 1150469007320 dimerization interface [polypeptide binding]; other site 1150469007321 active site 1150469007322 Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]; Region: UspA; COG0589 1150469007323 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 1150469007324 Ligand Binding Site [chemical binding]; other site 1150469007325 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 1150469007326 IHF dimer interface [polypeptide binding]; other site 1150469007327 IHF - DNA interface [nucleotide binding]; other site 1150469007328 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1150469007329 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 1150469007330 RNA binding site [nucleotide binding]; other site 1150469007331 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 1150469007332 RNA binding site [nucleotide binding]; other site 1150469007333 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 1150469007334 RNA binding site [nucleotide binding]; other site 1150469007335 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 1150469007336 RNA binding site [nucleotide binding]; other site 1150469007337 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 1150469007338 RNA binding site [nucleotide binding]; other site 1150469007339 S1_RPS1_repeat_ec6: 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_ec6; cd05691 1150469007340 RNA binding site [nucleotide binding]; other site 1150469007341 cytidylate kinase; Provisional; Region: cmk; PRK00023 1150469007342 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 1150469007343 CMP-binding site; other site 1150469007344 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1150469007345 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 1150469007346 hinge; other site 1150469007347 active site 1150469007348 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 1150469007349 TIGR02300 family protein; Region: FYDLN_acid 1150469007350 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1150469007351 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1150469007352 Coenzyme A binding pocket [chemical binding]; other site 1150469007353 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1150469007354 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 1150469007355 AzlC protein; Region: AzlC; pfam03591 1150469007356 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1150469007357 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1150469007358 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1150469007359 HlyD family secretion protein; Region: HlyD_3; pfam13437 1150469007360 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1150469007361 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1150469007362 Walker A/P-loop; other site 1150469007363 ATP binding site [chemical binding]; other site 1150469007364 Q-loop/lid; other site 1150469007365 ABC transporter signature motif; other site 1150469007366 Walker B; other site 1150469007367 D-loop; other site 1150469007368 H-loop/switch region; other site 1150469007369 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1150469007370 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1150469007371 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1150469007372 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 1150469007373 dimerization interface [polypeptide binding]; other site 1150469007374 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469007375 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469007376 dimer interface [polypeptide binding]; other site 1150469007377 putative CheW interface [polypeptide binding]; other site 1150469007378 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 1150469007379 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 1150469007380 contig_122 1150469007381 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; cl00207 1150469007382 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 1150469007383 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 1150469007384 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1150469007385 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1150469007386 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1150469007387 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 1150469007388 ligand binding site [chemical binding]; other site 1150469007389 flexible hinge region; other site 1150469007390 Isochorismatase family; Region: Isochorismatase; pfam00857 1150469007391 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 1150469007392 catalytic triad [active] 1150469007393 dimer interface [polypeptide binding]; other site 1150469007394 conserved cis-peptide bond; other site 1150469007395 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 1150469007396 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1150469007397 ATP binding site [chemical binding]; other site 1150469007398 Mg++ binding site [ion binding]; other site 1150469007399 motif III; other site 1150469007400 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 1150469007401 nucleotide binding region [chemical binding]; other site 1150469007402 ATP-binding site [chemical binding]; other site 1150469007403 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; cl00207 1150469007404 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1150469007405 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 1150469007406 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1150469007407 homodimer interface [polypeptide binding]; other site 1150469007408 catalytic residue [active] 1150469007409 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1150469007410 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1150469007411 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1150469007412 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1150469007413 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1150469007414 NAD(P) binding site [chemical binding]; other site 1150469007415 active site 1150469007416 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1150469007417 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 1150469007418 FMN binding site [chemical binding]; other site 1150469007419 active site 1150469007420 substrate binding site [chemical binding]; other site 1150469007421 catalytic residue [active] 1150469007422 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1150469007423 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1150469007424 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1150469007425 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1150469007426 FAD binding site [chemical binding]; other site 1150469007427 substrate binding pocket [chemical binding]; other site 1150469007428 catalytic base [active] 1150469007429 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 1150469007430 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 1150469007431 ATP binding site [chemical binding]; other site 1150469007432 Mg++ binding site [ion binding]; other site 1150469007433 motif III; other site 1150469007434 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 1150469007435 nucleotide binding region [chemical binding]; other site 1150469007436 ATP-binding site [chemical binding]; other site 1150469007437 short chain dehydrogenase; Provisional; Region: PRK09134 1150469007438 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1150469007439 NAD(P) binding site [chemical binding]; other site 1150469007440 active site 1150469007441 Dihydroneopterin aldolase; Region: FolB; smart00905 1150469007442 active site 1150469007443 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1150469007444 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1150469007445 GIY-YIG motif/motif A; other site 1150469007446 active site 1150469007447 catalytic site [active] 1150469007448 putative DNA binding site [nucleotide binding]; other site 1150469007449 metal binding site [ion binding]; metal-binding site 1150469007450 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1150469007451 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1150469007452 GAF domain; Region: GAF; pfam01590 1150469007453 GAF domain; Region: GAF_2; pfam13185 1150469007454 contig_208 1150469007455 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; pfam09608 1150469007456 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 1150469007457 Ligand Binding Site [chemical binding]; other site 1150469007458 contig_226 1150469007459 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 1150469007460 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 1150469007461 putative ADP-binding pocket [chemical binding]; other site 1150469007462 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 1150469007463 Ligand Binding Site [chemical binding]; other site 1150469007464 Molecular Tunnel; other site 1150469007465 contig_215 1150469007466 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 1150469007467 active site residue [active] 1150469007468 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 1150469007469 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1150469007470 active site 1150469007471 catalytic tetrad [active] 1150469007472 contig_225 1150469007473 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1150469007474 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 1150469007475 active site 1150469007476 metal binding site [ion binding]; metal-binding site 1150469007477 Predicted membrane protein [Function unknown]; Region: COG2119 1150469007478 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1150469007479 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1150469007480 contig_237 1150469007481 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1150469007482 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 1150469007483 DNA binding site [nucleotide binding] 1150469007484 active site 1150469007485 contig_248 1150469007486 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 1150469007487 S-adenosylmethionine binding site [chemical binding]; other site 1150469007488 contig_254 1150469007489 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1150469007490 contig_222 1150469007491 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1150469007492 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 1150469007493 DNA binding residues [nucleotide binding] 1150469007494 dimerization interface [polypeptide binding]; other site 1150469007495 Autoinducer synthetase; Region: Autoind_synth; cl17404 1150469007496 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1150469007497 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 1150469007498 sequence-specific DNA binding site [nucleotide binding]; other site 1150469007499 salt bridge; other site 1150469007500 ribonuclease PH; Reviewed; Region: rph; PRK00173 1150469007501 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1150469007502 hexamer interface [polypeptide binding]; other site 1150469007503 active site 1150469007504 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 1150469007505 active site 1150469007506 dimerization interface [polypeptide binding]; other site 1150469007507 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 1150469007508 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 1150469007509 FeS/SAM binding site; other site 1150469007510 HemN C-terminal domain; Region: HemN_C; pfam06969 1150469007511 short chain dehydrogenase; Provisional; Region: PRK07024 1150469007512 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1150469007513 NAD(P) binding site [chemical binding]; other site 1150469007514 active site 1150469007515 contig_253 1150469007516 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1150469007517 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 1150469007518 S-adenosylmethionine binding site [chemical binding]; other site 1150469007519 contig_190 1150469007520 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1150469007521 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469007522 Walker A/P-loop; other site 1150469007523 ATP binding site [chemical binding]; other site 1150469007524 Q-loop/lid; other site 1150469007525 ABC transporter signature motif; other site 1150469007526 Walker B; other site 1150469007527 D-loop; other site 1150469007528 H-loop/switch region; other site 1150469007529 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1150469007530 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469007531 Walker A/P-loop; other site 1150469007532 ATP binding site [chemical binding]; other site 1150469007533 Q-loop/lid; other site 1150469007534 ABC transporter signature motif; other site 1150469007535 Walker B; other site 1150469007536 D-loop; other site 1150469007537 H-loop/switch region; other site 1150469007538 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 1150469007539 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1150469007540 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1150469007541 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 1150469007542 dimer interface [polypeptide binding]; other site 1150469007543 conserved gate region; other site 1150469007544 putative PBP binding loops; other site 1150469007545 ABC-ATPase subunit interface; other site 1150469007546 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1150469007547 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1150469007548 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1150469007549 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1150469007550 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 1150469007551 DctM-like transporters; Region: DctM; pfam06808 1150469007552 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1150469007553 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1150469007554 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1150469007555 PAS domain S-box; Region: sensory_box; TIGR00229 1150469007556 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 1150469007557 putative active site [active] 1150469007558 heme pocket [chemical binding]; other site 1150469007559 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 1150469007560 dimer interface [polypeptide binding]; other site 1150469007561 phosphorylation site [posttranslational modification] 1150469007562 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1150469007563 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 1150469007564 ATP binding site [chemical binding]; other site 1150469007565 Mg2+ binding site [ion binding]; other site 1150469007566 G-X-G motif; other site 1150469007567 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1150469007568 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 1150469007569 active site 1150469007570 phosphorylation site [posttranslational modification] 1150469007571 intermolecular recognition site; other site 1150469007572 dimerization interface [polypeptide binding]; other site 1150469007573 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 1150469007574 DNA binding residues [nucleotide binding] 1150469007575 dimerization interface [polypeptide binding]; other site 1150469007576 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1150469007577 FHIPEP family; Region: FHIPEP; pfam00771 1150469007578 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1150469007579 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 1150469007580 active site 1150469007581 phosphorylation site [posttranslational modification] 1150469007582 dimerization interface [polypeptide binding]; other site 1150469007583 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 1150469007584 Walker A motif; other site 1150469007585 ATP binding site [chemical binding]; other site 1150469007586 Walker B motif; other site 1150469007587 arginine finger; other site 1150469007588 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1150469007589 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1150469007590 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1150469007591 flagellar assembly protein H; Validated; Region: fliH; PRK06032 1150469007592 Flagellar assembly protein FliH; Region: FliH; pfam02108 1150469007593 contig_197 1150469007594 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1150469007595 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1150469007596 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1150469007597 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1150469007598 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 1150469007599 Walker A motif; other site 1150469007600 ATP binding site [chemical binding]; other site 1150469007601 Walker B motif; other site 1150469007602 contig_217 1150469007603 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 1150469007604 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 1150469007605 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 1150469007606 molybdenum-pterin binding domain; Region: Mop; TIGR00638 1150469007607 molybdenum-pterin binding domain; Region: Mop; TIGR00638 1150469007608 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1150469007609 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1150469007610 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1150469007611 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 1150469007612 dimer interface [polypeptide binding]; other site 1150469007613 conserved gate region; other site 1150469007614 putative PBP binding loops; other site 1150469007615 ABC-ATPase subunit interface; other site 1150469007616 contig_239 1150469007617 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 1150469007618 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 1150469007619 putative ribose interaction site [chemical binding]; other site 1150469007620 putative ADP binding site [chemical binding]; other site 1150469007621 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1150469007622 active site 1150469007623 HIGH motif; other site 1150469007624 nucleotide binding site [chemical binding]; other site 1150469007625 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 1150469007626 contig_229 1150469007627 MarR family; Region: MarR; pfam01047 1150469007628 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 1150469007629 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 1150469007630 interface (dimer of trimers) [polypeptide binding]; other site 1150469007631 Substrate-binding/catalytic site; other site 1150469007632 Zn-binding sites [ion binding]; other site 1150469007633 contig_199 1150469007634 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1150469007635 putative hydrolase; Provisional; Region: PRK02113 1150469007636 contig_240 1150469007637 enoyl-CoA hydratase; Provisional; Region: PRK06688 1150469007638 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 1150469007639 substrate binding site [chemical binding]; other site 1150469007640 oxyanion hole (OAH) forming residues; other site 1150469007641 trimer interface [polypeptide binding]; other site 1150469007642 contig_188 1150469007643 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 1150469007644 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1150469007645 metal binding triad; other site 1150469007646 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1150469007647 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1150469007648 metal binding triad; other site 1150469007649 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1150469007650 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 1150469007651 catalytic triad [active] 1150469007652 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1150469007653 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 1150469007654 putative dimer interface [polypeptide binding]; other site 1150469007655 Protein of unknown function (DUF1150); Region: DUF1150; pfam06620 1150469007656 Domain of unknown function DUF302; Region: DUF302; pfam03625 1150469007657 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 1150469007658 Rubredoxin; Region: Rubredoxin; pfam00301 1150469007659 iron binding site [ion binding]; other site 1150469007660 Outer membrane lipoprotein; Region: YfiO; pfam13525 1150469007661 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 1150469007662 binding surface 1150469007663 TPR motif; other site 1150469007664 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1150469007665 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1150469007666 Walker A/P-loop; other site 1150469007667 ATP binding site [chemical binding]; other site 1150469007668 Q-loop/lid; other site 1150469007669 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1150469007670 ABC transporter signature motif; other site 1150469007671 Walker B; other site 1150469007672 D-loop; other site 1150469007673 H-loop/switch region; other site 1150469007674 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1150469007675 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 1150469007676 nucleotide binding pocket [chemical binding]; other site 1150469007677 K-X-D-G motif; other site 1150469007678 catalytic site [active] 1150469007679 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1150469007680 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1150469007681 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 1150469007682 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 1150469007683 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1150469007684 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1150469007685 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 1150469007686 contig_238 1150469007687 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1150469007688 ABC1 family; Region: ABC1; pfam03109 1150469007689 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1150469007690 active site 1150469007691 ATP binding site [chemical binding]; other site 1150469007692 substrate binding site [chemical binding]; other site 1150469007693 activation loop (A-loop); other site 1150469007694 contig_221 1150469007695 Cache domain; Region: Cache_1; pfam02743 1150469007696 HAMP domain; Region: HAMP; pfam00672 1150469007697 dimerization interface [polypeptide binding]; other site 1150469007698 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469007699 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469007700 dimer interface [polypeptide binding]; other site 1150469007701 putative CheW interface [polypeptide binding]; other site 1150469007702 contig_293 1150469007703 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1150469007704 contig_298 1150469007705 contig_173 1150469007706 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1150469007707 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1150469007708 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 1150469007709 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1150469007710 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1150469007711 Putative ammonia monooxygenase; Region: AmoA; pfam05145 1150469007712 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1150469007713 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1150469007714 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 1150469007715 dimer interface [polypeptide binding]; other site 1150469007716 phosphorylation site [posttranslational modification] 1150469007717 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 1150469007718 ATP binding site [chemical binding]; other site 1150469007719 Mg2+ binding site [ion binding]; other site 1150469007720 G-X-G motif; other site 1150469007721 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 1150469007722 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1150469007723 catalytic residues [active] 1150469007724 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1150469007725 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 1150469007726 phytoene desaturase; Region: crtI_fam; TIGR02734 1150469007727 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1150469007728 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1150469007729 substrate binding pocket [chemical binding]; other site 1150469007730 chain length determination region; other site 1150469007731 substrate-Mg2+ binding site; other site 1150469007732 catalytic residues [active] 1150469007733 aspartate-rich region 1; other site 1150469007734 active site lid residues [active] 1150469007735 aspartate-rich region 2; other site 1150469007736 contig_236 1150469007737 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 1150469007738 putative active site [active] 1150469007739 Ap4A binding site [chemical binding]; other site 1150469007740 nudix motif; other site 1150469007741 putative metal binding site [ion binding]; other site 1150469007742 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1150469007743 NodB motif; other site 1150469007744 putative active site [active] 1150469007745 putative catalytic site [active] 1150469007746 Zn binding site [ion binding]; other site 1150469007747 contig_230 1150469007748 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 1150469007749 contig_235 1150469007750 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 1150469007751 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 1150469007752 motif II; other site 1150469007753 contig_295 1150469007754 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469007755 Q-loop/lid; other site 1150469007756 ABC transporter signature motif; other site 1150469007757 Walker B; other site 1150469007758 D-loop; other site 1150469007759 H-loop/switch region; other site 1150469007760 contig_300 1150469007761 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1150469007762 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1150469007763 contig_290 1150469007764 contig_220 1150469007765 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 1150469007766 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1150469007767 contig_198 1150469007768 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1150469007769 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 1150469007770 Walker A motif; other site 1150469007771 ATP binding site [chemical binding]; other site 1150469007772 Walker B motif; other site 1150469007773 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 1150469007774 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1150469007775 TrkA-N domain; Region: TrkA_N; pfam02254 1150469007776 Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to...; Region: TUDOR; cd04508 1150469007777 dimethylated arginine/lysine binding site [chemical binding]; other site 1150469007778 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1150469007779 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1150469007780 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1150469007781 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 1150469007782 putative DNA binding site [nucleotide binding]; other site 1150469007783 putative Zn2+ binding site [ion binding]; other site 1150469007784 AsnC family; Region: AsnC_trans_reg; pfam01037 1150469007785 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 1150469007786 Predicted permeases [General function prediction only]; Region: COG0701 1150469007787 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1150469007788 Coenzyme A binding pocket [chemical binding]; other site 1150469007789 Sodium Bile acid symporter family; Region: SBF; cl17470 1150469007790 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1150469007791 contig_232 1150469007792 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1150469007793 contig_279 1150469007794 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 1150469007795 contig_302 1150469007796 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 1150469007797 contig_263 1150469007798 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1150469007799 contig_275 1150469007800 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 1150469007801 contig_202 1150469007802 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1150469007803 Glucose inhibited division protein A; Region: GIDA; pfam01134 1150469007804 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 1150469007805 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1150469007806 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1150469007807 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1150469007808 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1150469007809 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1150469007810 Coenzyme A binding pocket [chemical binding]; other site 1150469007811 contig_311 1150469007812 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1150469007813 contig_115 1150469007814 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 1150469007815 dimerization interface [polypeptide binding]; other site 1150469007816 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1150469007817 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1150469007818 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1150469007819 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1150469007820 Coenzyme A binding pocket [chemical binding]; other site 1150469007821 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1150469007822 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 1150469007823 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1150469007824 putative substrate translocation pore; other site 1150469007825 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1150469007826 TrkA-N domain; Region: TrkA_N; pfam02254 1150469007827 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1150469007828 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1150469007829 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1150469007830 conserved cys residue [active] 1150469007831 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 1150469007832 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 1150469007833 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1150469007834 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; cl02529 1150469007835 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1150469007836 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1150469007837 conserved cys residue [active] 1150469007838 CHASE3 domain; Region: CHASE3; cl05000 1150469007839 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1150469007840 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469007841 dimer interface [polypeptide binding]; other site 1150469007842 putative CheW interface [polypeptide binding]; other site 1150469007843 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1150469007844 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1150469007845 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1150469007846 chaperone protein DnaJ; Provisional; Region: PRK10767 1150469007847 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 1150469007848 HSP70 interaction site [polypeptide binding]; other site 1150469007849 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1150469007850 substrate binding site [polypeptide binding]; other site 1150469007851 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1150469007852 Zn binding sites [ion binding]; other site 1150469007853 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1150469007854 dimer interface [polypeptide binding]; other site 1150469007855 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1150469007856 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 1150469007857 nucleotide binding site [chemical binding]; other site 1150469007858 NEF interaction site [polypeptide binding]; other site 1150469007859 SBD interface [polypeptide binding]; other site 1150469007860 Protein of unknown function (DUF1178); Region: DUF1178; cl17833 1150469007861 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 1150469007862 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cl01298 1150469007863 contig_314 1150469007864 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 1150469007865 contig_303 1150469007866 contig_284 1150469007867 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1150469007868 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1150469007869 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1150469007870 Transposase domain (DUF772); Region: DUF772; pfam05598 1150469007871 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1150469007872 DDE superfamily endonuclease; Region: DDE_4; cl17710 1150469007873 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1150469007874 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1150469007875 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 1150469007876 Transposase domain (DUF772); Region: DUF772; pfam05598 1150469007877 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1150469007878 DDE superfamily endonuclease; Region: DDE_4; cl17710 1150469007879 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1150469007880 MULE transposase domain; Region: MULE; pfam10551 1150469007881 Transposase domain (DUF772); Region: DUF772; pfam05598 1150469007882 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1150469007883 MULE transposase domain; Region: MULE; pfam10551 1150469007884 contig_306 1150469007885 contig_58 1150469007886 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 1150469007887 DNA binding site [nucleotide binding] 1150469007888 active site 1150469007889 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 1150469007890 DNA binding site [nucleotide binding] 1150469007891 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 1150469007892 active site 1150469007893 catalytic residues [active] 1150469007894 DNA binding site [nucleotide binding] 1150469007895 Int/Topo IB signature motif; other site 1150469007896 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; cd00317 1150469007897 active site 1150469007898 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1150469007899 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1150469007900 active site 1150469007901 (T/H)XGH motif; other site 1150469007902 DNA gyrase subunit A; Validated; Region: PRK05560 1150469007903 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 1150469007904 CAP-like domain; other site 1150469007905 active site 1150469007906 primary dimer interface [polypeptide binding]; other site 1150469007907 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1150469007908 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1150469007909 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1150469007910 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1150469007911 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1150469007912 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1150469007913 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1150469007914 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1150469007915 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1150469007916 CoenzymeA binding site [chemical binding]; other site 1150469007917 subunit interaction site [polypeptide binding]; other site 1150469007918 PHB binding site; other site 1150469007919 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 1150469007920 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 1150469007921 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 1150469007922 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 1150469007923 homodimer interface [polypeptide binding]; other site 1150469007924 substrate-cofactor binding pocket; other site 1150469007925 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1150469007926 catalytic residue [active] 1150469007927 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 1150469007928 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 1150469007929 putative NADP binding site [chemical binding]; other site 1150469007930 putative substrate binding site [chemical binding]; other site 1150469007931 active site 1150469007932 6-phosphofructokinase; Provisional; Region: PRK14072 1150469007933 allosteric effector site; other site 1150469007934 dimerization interface [polypeptide binding]; other site 1150469007935 active site 1150469007936 ADP/pyrophosphate binding site [chemical binding]; other site 1150469007937 fructose-1,6-bisphosphate binding site; other site 1150469007938 Response regulator receiver domain; Region: Response_reg; pfam00072 1150469007939 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 1150469007940 active site 1150469007941 phosphorylation site [posttranslational modification] 1150469007942 intermolecular recognition site; other site 1150469007943 dimerization interface [polypeptide binding]; other site 1150469007944 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1150469007945 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 1150469007946 active site 1150469007947 phosphorylation site [posttranslational modification] 1150469007948 intermolecular recognition site; other site 1150469007949 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 1150469007950 PAS domain; Region: PAS_9; pfam13426 1150469007951 putative active site [active] 1150469007952 heme pocket [chemical binding]; other site 1150469007953 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469007954 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469007955 metal binding site [ion binding]; metal-binding site 1150469007956 active site 1150469007957 I-site; other site 1150469007958 glycine dehydrogenase subunit 2; Validated; Region: PRK04366 1150469007959 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1150469007960 catalytic residue [active] 1150469007961 glycine dehydrogenase subunit 1; Validated; Region: PRK00451 1150469007962 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1150469007963 catalytic residue [active] 1150469007964 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 1150469007965 lipoyl attachment site [posttranslational modification]; other site 1150469007966 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 1150469007967 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1150469007968 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1150469007969 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1150469007970 putative acyltransferase; Provisional; Region: PRK05790 1150469007971 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1150469007972 dimer interface [polypeptide binding]; other site 1150469007973 active site 1150469007974 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 1150469007975 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1150469007976 NAD(P) binding site [chemical binding]; other site 1150469007977 homotetramer interface [polypeptide binding]; other site 1150469007978 homodimer interface [polypeptide binding]; other site 1150469007979 active site 1150469007980 contig_256 1150469007981 contig_124 1150469007982 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 1150469007983 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 1150469007984 dimer interface [polypeptide binding]; other site 1150469007985 active site 1150469007986 metal binding site [ion binding]; metal-binding site 1150469007987 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1150469007988 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1150469007989 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 1150469007990 membrane ATPase/protein kinase; Provisional; Region: PRK09435 1150469007991 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 1150469007992 Walker A; other site 1150469007993 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1150469007994 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 1150469007995 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 1150469007996 active site 1150469007997 substrate binding site [chemical binding]; other site 1150469007998 coenzyme B12 binding site [chemical binding]; other site 1150469007999 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 1150469008000 B12 binding site [chemical binding]; other site 1150469008001 cobalt ligand [ion binding]; other site 1150469008002 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 1150469008003 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 1150469008004 heterodimer interface [polypeptide binding]; other site 1150469008005 substrate interaction site [chemical binding]; other site 1150469008006 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1150469008007 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1150469008008 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 1150469008009 active site 1150469008010 metal binding site [ion binding]; metal-binding site 1150469008011 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1150469008012 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1150469008013 Family description; Region: UvrD_C_2; pfam13538 1150469008014 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1150469008015 active site 1150469008016 putative substrate binding region [chemical binding]; other site 1150469008017 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1150469008018 HlyD family secretion protein; Region: HlyD_3; pfam13437 1150469008019 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1150469008020 HlyD family secretion protein; Region: HlyD_3; pfam13437 1150469008021 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1150469008022 HlyD family secretion protein; Region: HlyD_3; pfam13437 1150469008023 Outer membrane efflux protein; Region: OEP; pfam02321 1150469008024 Outer membrane efflux protein; Region: OEP; pfam02321 1150469008025 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1150469008026 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1150469008027 Coenzyme A binding pocket [chemical binding]; other site 1150469008028 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1150469008029 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 1150469008030 ATP binding site [chemical binding]; other site 1150469008031 Mg2+ binding site [ion binding]; other site 1150469008032 G-X-G motif; other site 1150469008033 PAS domain S-box; Region: sensory_box; TIGR00229 1150469008034 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 1150469008035 putative active site [active] 1150469008036 heme pocket [chemical binding]; other site 1150469008037 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 1150469008038 PAS domain; Region: PAS_9; pfam13426 1150469008039 putative active site [active] 1150469008040 heme pocket [chemical binding]; other site 1150469008041 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469008042 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469008043 metal binding site [ion binding]; metal-binding site 1150469008044 active site 1150469008045 I-site; other site 1150469008046 FeoA domain; Region: FeoA; pfam04023 1150469008047 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 1150469008048 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1150469008049 G1 box; other site 1150469008050 GTP/Mg2+ binding site [chemical binding]; other site 1150469008051 Switch I region; other site 1150469008052 G2 box; other site 1150469008053 G3 box; other site 1150469008054 Switch II region; other site 1150469008055 G4 box; other site 1150469008056 G5 box; other site 1150469008057 Nucleoside recognition; Region: Gate; pfam07670 1150469008058 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1150469008059 Nucleoside recognition; Region: Gate; pfam07670 1150469008060 FeoA domain; Region: FeoA; pfam04023 1150469008061 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 1150469008062 phage exclusion protein Lit; Provisional; Region: PRK09672 1150469008063 hybrid cluster protein; Provisional; Region: PRK05290 1150469008064 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 1150469008065 ACS interaction site; other site 1150469008066 CODH interaction site; other site 1150469008067 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 1150469008068 ACS interaction site; other site 1150469008069 CODH interaction site; other site 1150469008070 metal cluster binding site [ion binding]; other site 1150469008071 Transcriptional regulator; Region: Rrf2; cl17282 1150469008072 Rrf2 family protein; Region: rrf2_super; TIGR00738 1150469008073 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 1150469008074 dihydroorotase; Validated; Region: PRK09059 1150469008075 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 1150469008076 active site 1150469008077 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1150469008078 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1150469008079 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1150469008080 PAS domain; Region: PAS_9; pfam13426 1150469008081 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 1150469008082 putative active site [active] 1150469008083 heme pocket [chemical binding]; other site 1150469008084 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 1150469008085 PAS domain; Region: PAS_9; pfam13426 1150469008086 putative active site [active] 1150469008087 heme pocket [chemical binding]; other site 1150469008088 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469008089 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469008090 dimer interface [polypeptide binding]; other site 1150469008091 putative CheW interface [polypeptide binding]; other site 1150469008092 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1150469008093 Catalytic site; other site 1150469008094 Uncharacterized conserved protein [Function unknown]; Region: COG2928 1150469008095 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1150469008096 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 1150469008097 generic binding surface II; other site 1150469008098 ssDNA binding site; other site 1150469008099 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 1150469008100 ATP binding site [chemical binding]; other site 1150469008101 putative Mg++ binding site [ion binding]; other site 1150469008102 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 1150469008103 nucleotide binding region [chemical binding]; other site 1150469008104 ATP-binding site [chemical binding]; other site 1150469008105 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 1150469008106 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1150469008107 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1150469008108 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 1150469008109 ATP binding site [chemical binding]; other site 1150469008110 putative Mg++ binding site [ion binding]; other site 1150469008111 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 1150469008112 nucleotide binding region [chemical binding]; other site 1150469008113 ATP-binding site [chemical binding]; other site 1150469008114 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1150469008115 contig_319 1150469008116 contig_299 1150469008117 contig_17 1150469008118 contig_241 1150469008119 Transposase domain (DUF772); Region: DUF772; pfam05598 1150469008120 DDE superfamily endonuclease; Region: DDE_4; cl17710 1150469008121 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 1150469008122 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 1150469008123 active site 1150469008124 metal binding site [ion binding]; metal-binding site 1150469008125 interdomain interaction site; other site 1150469008126 contig_285 1150469008127 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1150469008128 Transposase domain (DUF772); Region: DUF772; pfam05598 1150469008129 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1150469008130 DDE superfamily endonuclease; Region: DDE_4; cl17710 1150469008131 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1150469008132 MULE transposase domain; Region: MULE; pfam10551 1150469008133 ParA-like protein; Provisional; Region: PHA02518 1150469008134 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 1150469008135 P-loop; other site 1150469008136 Magnesium ion binding site [ion binding]; other site 1150469008137 MULE transposase domain; Region: MULE; pfam10551 1150469008138 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1150469008139 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1150469008140 contig_297 1150469008141 Homeodomain-like domain; Region: HTH_23; pfam13384 1150469008142 Winged helix-turn helix; Region: HTH_29; pfam13551 1150469008143 Winged helix-turn helix; Region: HTH_33; pfam13592 1150469008144 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1150469008145 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1150469008146 contig_304 1150469008147 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 1150469008148 contig_102 1150469008149 GTP-binding protein Der; Reviewed; Region: PRK00093 1150469008150 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1150469008151 G2 box; other site 1150469008152 Switch I region; other site 1150469008153 G3 box; other site 1150469008154 Switch II region; other site 1150469008155 GTP/Mg2+ binding site [chemical binding]; other site 1150469008156 G4 box; other site 1150469008157 G5 box; other site 1150469008158 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1150469008159 G1 box; other site 1150469008160 GTP/Mg2+ binding site [chemical binding]; other site 1150469008161 Switch I region; other site 1150469008162 G2 box; other site 1150469008163 G3 box; other site 1150469008164 Switch II region; other site 1150469008165 G4 box; other site 1150469008166 G5 box; other site 1150469008167 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 1150469008168 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1150469008169 Trp docking motif [polypeptide binding]; other site 1150469008170 active site 1150469008171 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 1150469008172 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1150469008173 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 1150469008174 dimerization interface [polypeptide binding]; other site 1150469008175 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469008176 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469008177 dimer interface [polypeptide binding]; other site 1150469008178 putative CheW interface [polypeptide binding]; other site 1150469008179 Predicted permeases [General function prediction only]; Region: COG0795 1150469008180 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1150469008181 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 1150469008182 active site 1150469008183 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 1150469008184 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 1150469008185 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 1150469008186 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 1150469008187 active site 1150469008188 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1150469008189 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 1150469008190 domain interfaces; other site 1150469008191 active site 1150469008192 UGMP family protein; Validated; Region: PRK09604 1150469008193 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1150469008194 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1150469008195 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1150469008196 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1150469008197 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1150469008198 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 1150469008199 PAS domain; Region: PAS_9; pfam13426 1150469008200 putative active site [active] 1150469008201 heme pocket [chemical binding]; other site 1150469008202 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469008203 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469008204 metal binding site [ion binding]; metal-binding site 1150469008205 active site 1150469008206 I-site; other site 1150469008207 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 1150469008208 YciI-like protein; Reviewed; Region: PRK12863 1150469008209 EVE domain; Region: EVE; pfam01878 1150469008210 acetyl-CoA synthetase; Provisional; Region: PRK00174 1150469008211 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1150469008212 active site 1150469008213 CoA binding site [chemical binding]; other site 1150469008214 acyl-activating enzyme (AAE) consensus motif; other site 1150469008215 AMP binding site [chemical binding]; other site 1150469008216 acetate binding site [chemical binding]; other site 1150469008217 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1150469008218 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 1150469008219 putative NAD(P) binding site [chemical binding]; other site 1150469008220 active site 1150469008221 putative substrate binding site [chemical binding]; other site 1150469008222 aconitate hydratase; Validated; Region: PRK09277 1150469008223 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1150469008224 ligand binding site [chemical binding]; other site 1150469008225 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 1150469008226 substrate binding site [chemical binding]; other site 1150469008227 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1150469008228 substrate binding site [chemical binding]; other site 1150469008229 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1150469008230 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 1150469008231 dimerization interface [polypeptide binding]; other site 1150469008232 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 1150469008233 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1150469008234 putative active site [active] 1150469008235 heme pocket [chemical binding]; other site 1150469008236 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 1150469008237 dimer interface [polypeptide binding]; other site 1150469008238 phosphorylation site [posttranslational modification] 1150469008239 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 1150469008240 ATP binding site [chemical binding]; other site 1150469008241 Mg2+ binding site [ion binding]; other site 1150469008242 G-X-G motif; other site 1150469008243 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1150469008244 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1150469008245 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1150469008246 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 1150469008247 L-aspartate oxidase; Provisional; Region: PRK06175 1150469008248 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1150469008249 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 1150469008250 putative SdhC subunit interface [polypeptide binding]; other site 1150469008251 putative proximal heme binding site [chemical binding]; other site 1150469008252 putative Iron-sulfur protein interface [polypeptide binding]; other site 1150469008253 putative proximal quinone binding site; other site 1150469008254 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 1150469008255 Iron-sulfur protein interface; other site 1150469008256 proximal quinone binding site [chemical binding]; other site 1150469008257 SdhD (CybS) interface [polypeptide binding]; other site 1150469008258 proximal heme binding site [chemical binding]; other site 1150469008259 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 1150469008260 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 1150469008261 active site 1150469008262 Zn binding site [ion binding]; other site 1150469008263 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 1150469008264 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 1150469008265 conserved cys residue [active] 1150469008266 preprotein translocase subunit SecB; Validated; Region: PRK05751 1150469008267 SecA binding site; other site 1150469008268 Preprotein binding site; other site 1150469008269 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 1150469008270 Tim44-like domain; Region: Tim44; pfam04280 1150469008271 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 1150469008272 MltA specific insert domain; Region: MltA; smart00925 1150469008273 3D domain; Region: 3D; pfam06725 1150469008274 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1150469008275 Cysteine-rich domain; Region: CCG; pfam02754 1150469008276 Cysteine-rich domain; Region: CCG; pfam02754 1150469008277 iron-sulfur cluster-binding protein; Region: TIGR00273 1150469008278 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1150469008279 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1150469008280 contig_184 1150469008281 RecT family; Region: RecT; cl04285 1150469008282 exonuclease VIII; Reviewed; Region: PRK09709 1150469008283 contig_68 1150469008284 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1150469008285 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 1150469008286 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1150469008287 G1 box; other site 1150469008288 GTP/Mg2+ binding site [chemical binding]; other site 1150469008289 G2 box; other site 1150469008290 Switch I region; other site 1150469008291 G3 box; other site 1150469008292 Switch II region; other site 1150469008293 G4 box; other site 1150469008294 TIR domain; Region: TIR_2; cl17458 1150469008295 NifQ; Region: NifQ; pfam04891 1150469008296 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 1150469008297 Protein of unknown function, DUF269; Region: DUF269; cl03973 1150469008298 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 1150469008299 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 1150469008300 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 1150469008301 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional; Region: PRK14478 1150469008302 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 1150469008303 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1150469008304 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 1150469008305 active site 1150469008306 phosphorylation site [posttranslational modification] 1150469008307 intermolecular recognition site; other site 1150469008308 dimerization interface [polypeptide binding]; other site 1150469008309 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 1150469008310 DNA binding residues [nucleotide binding] 1150469008311 dimerization interface [polypeptide binding]; other site 1150469008312 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1150469008313 MarR family; Region: MarR_2; pfam12802 1150469008314 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1150469008315 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1150469008316 active site 1150469008317 Riboflavin kinase; Region: Flavokinase; smart00904 1150469008318 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 1150469008319 dimer interaction site [polypeptide binding]; other site 1150469008320 substrate-binding tunnel; other site 1150469008321 active site 1150469008322 catalytic site [active] 1150469008323 substrate binding site [chemical binding]; other site 1150469008324 Sensors of blue-light using FAD; Region: BLUF; pfam04940 1150469008325 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1150469008326 EamA-like transporter family; Region: EamA; pfam00892 1150469008327 EamA-like transporter family; Region: EamA; pfam00892 1150469008328 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 1150469008329 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1150469008330 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 1150469008331 putative active site [active] 1150469008332 hypothetical protein; Provisional; Region: PRK05208 1150469008333 putative cation:proton antiport protein; Provisional; Region: PRK10669 1150469008334 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 1150469008335 TrkA-N domain; Region: TrkA_N; pfam02254 1150469008336 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 1150469008337 PAS domain; Region: PAS_9; pfam13426 1150469008338 putative active site [active] 1150469008339 heme pocket [chemical binding]; other site 1150469008340 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469008341 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469008342 metal binding site [ion binding]; metal-binding site 1150469008343 active site 1150469008344 I-site; other site 1150469008345 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 1150469008346 contig_30 1150469008347 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1150469008348 CoA binding domain; Region: CoA_binding_2; pfam13380 1150469008349 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1150469008350 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1150469008351 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 1150469008352 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1150469008353 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 1150469008354 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 1150469008355 diiron binding motif [ion binding]; other site 1150469008356 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 1150469008357 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 1150469008358 TPP-binding site [chemical binding]; other site 1150469008359 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 1150469008360 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 1150469008361 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1150469008362 dimer interface [polypeptide binding]; other site 1150469008363 PYR/PP interface [polypeptide binding]; other site 1150469008364 TPP binding site [chemical binding]; other site 1150469008365 substrate binding site [chemical binding]; other site 1150469008366 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1150469008367 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1150469008368 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1150469008369 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1150469008370 dimerization interface [polypeptide binding]; other site 1150469008371 DPS ferroxidase diiron center [ion binding]; other site 1150469008372 ion pore; other site 1150469008373 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1150469008374 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1150469008375 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 1150469008376 dimerization interface [polypeptide binding]; other site 1150469008377 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1150469008378 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 1150469008379 C-terminal domain interface [polypeptide binding]; other site 1150469008380 GSH binding site (G-site) [chemical binding]; other site 1150469008381 dimer interface [polypeptide binding]; other site 1150469008382 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 1150469008383 dimer interface [polypeptide binding]; other site 1150469008384 N-terminal domain interface [polypeptide binding]; other site 1150469008385 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1150469008386 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1150469008387 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 1150469008388 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469008389 Walker A/P-loop; other site 1150469008390 ATP binding site [chemical binding]; other site 1150469008391 Q-loop/lid; other site 1150469008392 ABC transporter signature motif; other site 1150469008393 Walker B; other site 1150469008394 H-loop/switch region; other site 1150469008395 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 1150469008396 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1150469008397 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1150469008398 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1150469008399 catalytic residue [active] 1150469008400 Predicted Fe-S protein [General function prediction only]; Region: COG2000 1150469008401 Putative Fe-S cluster; Region: FeS; cl17515 1150469008402 Src Homology 3 domain superfamily; Region: SH3; cl17036 1150469008403 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_4; cd04511 1150469008404 nudix motif; other site 1150469008405 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 1150469008406 nucleoside/Zn binding site; other site 1150469008407 dimer interface [polypeptide binding]; other site 1150469008408 catalytic motif [active] 1150469008409 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1150469008410 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 1150469008411 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 1150469008412 S-adenosylmethionine binding site [chemical binding]; other site 1150469008413 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1150469008414 Predicted ATPase [General function prediction only]; Region: COG1485 1150469008415 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 1150469008416 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1150469008417 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 1150469008418 flagellin; Provisional; Region: PRK14708 1150469008419 Flagellar protein FlaF; Region: FlaF; pfam07309 1150469008420 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 1150469008421 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 1150469008422 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 1150469008423 MoFe protein beta/alpha subunit interactions; other site 1150469008424 Beta subunit P cluster binding residues; other site 1150469008425 MoFe protein beta subunit/Fe protein contacts; other site 1150469008426 MoFe protein dimer/ dimer interactions; other site 1150469008427 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 1150469008428 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 1150469008429 MoFe protein alpha/beta subunit interactions; other site 1150469008430 Alpha subunit P cluster binding residues; other site 1150469008431 FeMoco binding residues [chemical binding]; other site 1150469008432 MoFe protein alpha subunit/Fe protein contacts; other site 1150469008433 MoFe protein dimer/ dimer interactions; other site 1150469008434 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 1150469008435 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 1150469008436 Nucleotide-binding sites [chemical binding]; other site 1150469008437 Walker A motif; other site 1150469008438 Switch I region of nucleotide binding site; other site 1150469008439 Fe4S4 binding sites [ion binding]; other site 1150469008440 Switch II region of nucleotide binding site; other site 1150469008441 Dinitrogenase reductase ADP-ribosyltransferase (DRAT); Region: DRAT; pfam07357 1150469008442 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 1150469008443 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1150469008444 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 1150469008445 dimer interface [polypeptide binding]; other site 1150469008446 ADP-ribose binding site [chemical binding]; other site 1150469008447 active site 1150469008448 nudix motif; other site 1150469008449 metal binding site [ion binding]; metal-binding site 1150469008450 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 1150469008451 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 1150469008452 S-adenosylmethionine binding site [chemical binding]; other site 1150469008453 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1150469008454 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 1150469008455 RNA binding surface [nucleotide binding]; other site 1150469008456 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1150469008457 active site 1150469008458 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1150469008459 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1150469008460 catalytic triad [active] 1150469008461 contig_57 1150469008462 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1150469008463 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 1150469008464 active site 1150469008465 metal binding site [ion binding]; metal-binding site 1150469008466 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1150469008467 Transglycosylase; Region: Transgly; pfam00912 1150469008468 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1150469008469 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 1150469008470 peptide chain release factor 2; Provisional; Region: PRK07342 1150469008471 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1150469008472 RF-1 domain; Region: RF-1; pfam00472 1150469008473 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1150469008474 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1150469008475 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1150469008476 peptide binding site [polypeptide binding]; other site 1150469008477 contig_89 1150469008478 isovaleryl-CoA dehydrogenase; Region: PLN02519 1150469008479 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1150469008480 substrate binding site [chemical binding]; other site 1150469008481 FAD binding site [chemical binding]; other site 1150469008482 catalytic base [active] 1150469008483 contig_47 1150469008484 Putative glucoamylase; Region: Glycoamylase; pfam10091 1150469008485 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 1150469008486 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1150469008487 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 1150469008488 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]; Region: COG5516 1150469008489 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 1150469008490 CGNR zinc finger; Region: zf-CGNR; pfam11706 1150469008491 EamA-like transporter family; Region: EamA; pfam00892 1150469008492 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1150469008493 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 1150469008494 N-terminal plug; other site 1150469008495 ligand-binding site [chemical binding]; other site 1150469008496 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 1150469008497 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1150469008498 putative hemin binding site; other site 1150469008499 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1150469008500 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1150469008501 dimer interface [polypeptide binding]; other site 1150469008502 putative PBP binding regions; other site 1150469008503 ABC-ATPase subunit interface; other site 1150469008504 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1150469008505 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1150469008506 Walker A/P-loop; other site 1150469008507 ATP binding site [chemical binding]; other site 1150469008508 Q-loop/lid; other site 1150469008509 ABC transporter signature motif; other site 1150469008510 Walker B; other site 1150469008511 D-loop; other site 1150469008512 H-loop/switch region; other site 1150469008513 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1150469008514 putative heme utilization radical SAM enzyme HutW; Region: rSAM_HutW; TIGR04107 1150469008515 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 1150469008516 FeS/SAM binding site; other site 1150469008517 HemN C-terminal domain; Region: HemN_C; pfam06969 1150469008518 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 1150469008519 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1150469008520 NAD(P) binding site [chemical binding]; other site 1150469008521 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1150469008522 active site 1150469008523 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1150469008524 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1150469008525 Bacterial transcriptional regulator; Region: IclR; pfam01614 1150469008526 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1150469008527 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 1150469008528 N-terminal plug; other site 1150469008529 ligand-binding site [chemical binding]; other site 1150469008530 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1150469008531 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1150469008532 acyl-CoA synthetase; Validated; Region: PRK09088 1150469008533 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1150469008534 acyl-activating enzyme (AAE) consensus motif; other site 1150469008535 AMP binding site [chemical binding]; other site 1150469008536 active site 1150469008537 CoA binding site [chemical binding]; other site 1150469008538 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 1150469008539 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 1150469008540 substrate binding site [chemical binding]; other site 1150469008541 oxyanion hole (OAH) forming residues; other site 1150469008542 trimer interface [polypeptide binding]; other site 1150469008543 MarR family; Region: MarR; pfam01047 1150469008544 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 1150469008545 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 1150469008546 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1150469008547 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1150469008548 active site 1150469008549 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1150469008550 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 1150469008551 ATP binding site [chemical binding]; other site 1150469008552 G-X-G motif; other site 1150469008553 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 1150469008554 non-specific DNA binding site [nucleotide binding]; other site 1150469008555 salt bridge; other site 1150469008556 sequence-specific DNA binding site [nucleotide binding]; other site 1150469008557 Response regulator receiver domain; Region: Response_reg; pfam00072 1150469008558 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 1150469008559 active site 1150469008560 phosphorylation site [posttranslational modification] 1150469008561 intermolecular recognition site; other site 1150469008562 dimerization interface [polypeptide binding]; other site 1150469008563 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 1150469008564 Right handed beta helix region; Region: Beta_helix; pfam13229 1150469008565 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 1150469008566 Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Region: PKD; smart00089 1150469008567 Cadherin repeat-like domain; Region: CA_like; cl15786 1150469008568 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1150469008569 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1150469008570 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 1150469008571 Cadherin repeat-like domain; Region: CA_like; cl15786 1150469008572 Ca2+ binding site [ion binding]; other site 1150469008573 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1150469008574 Outer membrane efflux protein; Region: OEP; pfam02321 1150469008575 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1150469008576 HlyD family secretion protein; Region: HlyD_3; pfam13437 1150469008577 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1150469008578 HlyD family secretion protein; Region: HlyD_3; pfam13437 1150469008579 HlyD family secretion protein; Region: HlyD_3; pfam13437 1150469008580 contig_62 1150469008581 hypothetical protein; Provisional; Region: PRK06034 1150469008582 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1150469008583 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 1150469008584 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1150469008585 homodimer interface [polypeptide binding]; other site 1150469008586 catalytic residue [active] 1150469008587 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 1150469008588 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1150469008589 NAD(P) binding site [chemical binding]; other site 1150469008591 HAMP domain; Region: HAMP; pfam00672 1150469008592 dimerization interface [polypeptide binding]; other site 1150469008593 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469008594 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469008595 dimer interface [polypeptide binding]; other site 1150469008596 putative CheW interface [polypeptide binding]; other site 1150469008597 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 1150469008598 catalytic core [active] 1150469008599 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 1150469008600 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 1150469008601 dimer interface [polypeptide binding]; other site 1150469008602 phosphorylation site [posttranslational modification] 1150469008603 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 1150469008604 ATP binding site [chemical binding]; other site 1150469008605 Mg2+ binding site [ion binding]; other site 1150469008606 G-X-G motif; other site 1150469008607 Response regulator receiver domain; Region: Response_reg; pfam00072 1150469008608 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 1150469008609 active site 1150469008610 phosphorylation site [posttranslational modification] 1150469008611 intermolecular recognition site; other site 1150469008612 dimerization interface [polypeptide binding]; other site 1150469008613 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 1150469008614 putative binding surface; other site 1150469008615 active site 1150469008616 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1150469008617 Predicted esterase [General function prediction only]; Region: COG0627 1150469008618 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1150469008619 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1150469008620 contig_32 1150469008621 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 1150469008622 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 1150469008623 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; pfam10124 1150469008624 contig_262 1150469008625 contig_22 1150469008626 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1150469008627 CoA binding domain; Region: CoA_binding; pfam02629 1150469008628 CoA-ligase; Region: Ligase_CoA; pfam00549 1150469008629 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1150469008630 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1150469008631 CoA-ligase; Region: Ligase_CoA; pfam00549 1150469008632 malate dehydrogenase; Reviewed; Region: PRK06223 1150469008633 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 1150469008634 NAD(P) binding site [chemical binding]; other site 1150469008635 dimer interface [polypeptide binding]; other site 1150469008636 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1150469008637 substrate binding site [chemical binding]; other site 1150469008638 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 1150469008639 PAS domain; Region: PAS_9; pfam13426 1150469008640 putative active site [active] 1150469008641 heme pocket [chemical binding]; other site 1150469008642 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 1150469008643 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 1150469008644 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469008645 dimer interface [polypeptide binding]; other site 1150469008646 putative CheW interface [polypeptide binding]; other site 1150469008647 PilZ domain; Region: PilZ; pfam07238 1150469008648 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1150469008649 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1150469008650 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 1150469008651 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 1150469008652 nucleotide binding site [chemical binding]; other site 1150469008653 SulA interaction site; other site 1150469008654 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 1150469008655 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1150469008656 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1150469008657 nucleotide binding site [chemical binding]; other site 1150469008658 Cell division protein FtsA; Region: FtsA; pfam14450 1150469008659 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1150469008660 Cell division protein FtsQ; Region: FtsQ; pfam03799 1150469008661 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1150469008662 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1150469008663 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1150469008664 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1150469008665 FAD binding domain; Region: FAD_binding_4; pfam01565 1150469008666 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1150469008667 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1150469008668 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1150469008669 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1150469008670 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1150469008671 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 1150469008672 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1150469008673 active site 1150469008674 homodimer interface [polypeptide binding]; other site 1150469008675 cell division protein FtsW; Region: ftsW; TIGR02614 1150469008676 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 1150469008677 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1150469008678 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1150469008679 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1150469008680 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 1150469008681 Mg++ binding site [ion binding]; other site 1150469008682 putative catalytic motif [active] 1150469008683 putative substrate binding site [chemical binding]; other site 1150469008684 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 1150469008685 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1150469008686 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1150469008687 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1150469008688 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1150469008689 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1150469008690 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1150469008691 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1150469008692 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1150469008693 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1150469008694 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 1150469008695 MraW methylase family; Region: Methyltransf_5; cl17771 1150469008696 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1150469008697 cell division protein MraZ; Reviewed; Region: PRK00326 1150469008698 MraZ protein; Region: MraZ; pfam02381 1150469008699 MraZ protein; Region: MraZ; pfam02381 1150469008700 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1150469008701 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 1150469008702 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1150469008703 catalytic residue [active] 1150469008704 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 1150469008705 substrate binding site [chemical binding]; other site 1150469008706 active site 1150469008707 catalytic residues [active] 1150469008708 heterodimer interface [polypeptide binding]; other site 1150469008709 Domain of unknown function (DUF897); Region: DUF897; cl01312 1150469008710 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 1150469008711 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 1150469008712 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06549 1150469008713 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 1150469008714 carboxyltransferase (CT) interaction site; other site 1150469008715 biotinylation site [posttranslational modification]; other site 1150469008716 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 1150469008717 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1150469008718 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1150469008719 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1150469008720 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1150469008721 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1150469008722 Walker A/P-loop; other site 1150469008723 ATP binding site [chemical binding]; other site 1150469008724 Q-loop/lid; other site 1150469008725 ABC transporter signature motif; other site 1150469008726 Walker B; other site 1150469008727 D-loop; other site 1150469008728 H-loop/switch region; other site 1150469008729 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1150469008730 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1150469008731 CHAP domain; Region: CHAP; cl17642 1150469008732 contig_11 1150469008733 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1150469008734 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 1150469008735 putative active site [active] 1150469008736 putative substrate binding site [chemical binding]; other site 1150469008737 ATP binding site [chemical binding]; other site 1150469008738 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1150469008739 RNA/DNA hybrid binding site [nucleotide binding]; other site 1150469008740 active site 1150469008741 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 1150469008742 thiamine phosphate binding site [chemical binding]; other site 1150469008743 active site 1150469008744 pyrophosphate binding site [ion binding]; other site 1150469008745 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 1150469008746 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 1150469008747 gating phenylalanine in ion channel; other site 1150469008748 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 1150469008749 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1150469008750 catalytic residue [active] 1150469008751 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1150469008752 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1150469008753 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 1150469008754 dimerization interface [polypeptide binding]; other site 1150469008755 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469008756 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469008757 dimer interface [polypeptide binding]; other site 1150469008758 putative CheW interface [polypeptide binding]; other site 1150469008759 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1150469008760 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1150469008761 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1150469008762 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1150469008763 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1150469008764 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1150469008765 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 1150469008766 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 1150469008767 putative dimer interface [polypeptide binding]; other site 1150469008768 [2Fe-2S] cluster binding site [ion binding]; other site 1150469008769 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 1150469008770 SLBB domain; Region: SLBB; pfam10531 1150469008771 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1150469008772 NADH dehydrogenase subunit G; Validated; Region: PRK09130 1150469008773 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 1150469008774 catalytic loop [active] 1150469008775 iron binding site [ion binding]; other site 1150469008776 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1150469008777 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 1150469008778 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 1150469008779 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1150469008780 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1150469008781 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1150469008782 4Fe-4S binding domain; Region: Fer4; pfam00037 1150469008783 4Fe-4S binding domain; Region: Fer4; pfam00037 1150469008784 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1150469008785 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1150469008786 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 1150469008787 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1150469008788 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1150469008789 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1150469008790 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1150469008791 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1150469008792 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1150469008793 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1150469008794 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1150469008795 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1150469008796 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1150469008797 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1150469008798 pantothenate kinase; Reviewed; Region: PRK13318 1150469008799 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1150469008800 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1150469008801 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1150469008802 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1150469008803 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 1150469008804 dimer interface [polypeptide binding]; other site 1150469008805 substrate binding site [chemical binding]; other site 1150469008806 metal binding site [ion binding]; metal-binding site 1150469008807 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 1150469008808 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1150469008809 contig_127 1150469008810 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1150469008811 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1150469008812 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1150469008813 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1150469008814 active site 1150469008815 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 1150469008816 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1150469008817 contig_41 1150469008818 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 1150469008819 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 1150469008820 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1150469008821 homodimer interface [polypeptide binding]; other site 1150469008822 catalytic residue [active] 1150469008823 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1150469008824 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 1150469008825 catalytic site [active] 1150469008826 G-X2-G-X-G-K; other site 1150469008827 hypothetical protein; Provisional; Region: PRK11820 1150469008828 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1150469008829 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1150469008830 NAD-dependent deacetylase; Provisional; Region: PRK00481 1150469008831 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 1150469008832 NAD+ binding site [chemical binding]; other site 1150469008833 substrate binding site [chemical binding]; other site 1150469008834 Zn binding site [ion binding]; other site 1150469008835 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1150469008836 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1150469008837 active site 1150469008838 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1150469008839 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1150469008840 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1150469008841 Esterase/lipase [General function prediction only]; Region: COG1647 1150469008842 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 1150469008843 Family description; Region: UvrD_C_2; pfam13538 1150469008844 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1150469008845 Nitrate and nitrite sensing; Region: NIT; pfam08376 1150469008846 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469008847 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469008848 dimer interface [polypeptide binding]; other site 1150469008849 putative CheW interface [polypeptide binding]; other site 1150469008850 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1150469008851 PAS domain; Region: PAS; smart00091 1150469008852 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1150469008853 PAS domain; Region: PAS_8; pfam13188 1150469008854 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 1150469008855 dimer interface [polypeptide binding]; other site 1150469008856 phosphorylation site [posttranslational modification] 1150469008857 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 1150469008858 ATP binding site [chemical binding]; other site 1150469008859 Mg2+ binding site [ion binding]; other site 1150469008860 G-X-G motif; other site 1150469008861 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 1150469008862 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 1150469008863 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1150469008864 dimer interface [polypeptide binding]; other site 1150469008865 PYR/PP interface [polypeptide binding]; other site 1150469008866 TPP binding site [chemical binding]; other site 1150469008867 substrate binding site [chemical binding]; other site 1150469008868 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1150469008869 Domain of unknown function; Region: EKR; pfam10371 1150469008870 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1150469008871 4Fe-4S binding domain; Region: Fer4; pfam00037 1150469008872 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 1150469008873 TPP-binding site [chemical binding]; other site 1150469008874 dimer interface [polypeptide binding]; other site 1150469008875 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 1150469008876 active site 1150469008877 phosphorylation site [posttranslational modification] 1150469008878 intermolecular recognition site; other site 1150469008879 dimerization interface [polypeptide binding]; other site 1150469008880 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469008881 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469008882 metal binding site [ion binding]; metal-binding site 1150469008883 active site 1150469008884 I-site; other site 1150469008885 CHASE domain; Region: CHASE; pfam03924 1150469008886 PAS domain S-box; Region: sensory_box; TIGR00229 1150469008887 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 1150469008888 putative active site [active] 1150469008889 heme pocket [chemical binding]; other site 1150469008890 PAS fold; Region: PAS_4; pfam08448 1150469008891 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 1150469008892 putative active site [active] 1150469008893 heme pocket [chemical binding]; other site 1150469008894 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1150469008895 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 1150469008896 putative active site [active] 1150469008897 heme pocket [chemical binding]; other site 1150469008898 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1150469008899 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 1150469008900 putative active site [active] 1150469008901 heme pocket [chemical binding]; other site 1150469008902 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 1150469008903 dimer interface [polypeptide binding]; other site 1150469008904 phosphorylation site [posttranslational modification] 1150469008905 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 1150469008906 ATP binding site [chemical binding]; other site 1150469008907 Mg2+ binding site [ion binding]; other site 1150469008908 G-X-G motif; other site 1150469008909 Response regulator receiver domain; Region: Response_reg; pfam00072 1150469008910 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 1150469008911 active site 1150469008912 phosphorylation site [posttranslational modification] 1150469008913 intermolecular recognition site; other site 1150469008914 dimerization interface [polypeptide binding]; other site 1150469008915 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1150469008916 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1150469008917 homotetramer interface [polypeptide binding]; other site 1150469008918 ligand binding site [chemical binding]; other site 1150469008919 catalytic site [active] 1150469008920 NAD binding site [chemical binding]; other site 1150469008921 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1150469008922 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1150469008923 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1150469008924 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1150469008925 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 1150469008926 dimerization domain swap beta strand [polypeptide binding]; other site 1150469008927 regulatory protein interface [polypeptide binding]; other site 1150469008928 active site 1150469008929 regulatory phosphorylation site [posttranslational modification]; other site 1150469008930 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 1150469008931 active pocket/dimerization site; other site 1150469008932 active site 1150469008933 phosphorylation site [posttranslational modification] 1150469008934 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1150469008935 Serine kinase of the HPr protein, regulates carbohydrate metabolism [Signal transduction mechanisms]; Region: HprK; COG1493 1150469008936 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 1150469008937 Hpr binding site; other site 1150469008938 active site 1150469008939 homohexamer subunit interaction site [polypeptide binding]; other site 1150469008940 contig_1 1150469008941 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1150469008942 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 1150469008943 RNA binding surface [nucleotide binding]; other site 1150469008944 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1150469008945 active site 1150469008946 recombination factor protein RarA; Reviewed; Region: PRK13342 1150469008947 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 1150469008948 Walker A motif; other site 1150469008949 ATP binding site [chemical binding]; other site 1150469008950 Walker B motif; other site 1150469008951 arginine finger; other site 1150469008952 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1150469008953 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1150469008954 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469008955 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469008956 dimer interface [polypeptide binding]; other site 1150469008957 putative CheW interface [polypeptide binding]; other site 1150469008958 GAF domain; Region: GAF; pfam01590 1150469008959 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1150469008960 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 1150469008961 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1150469008962 Hemerythrin; Region: Hemerythrin; cd12107 1150469008963 Fe binding site [ion binding]; other site 1150469008964 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1150469008965 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 1150469008966 ligand binding site [chemical binding]; other site 1150469008967 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1150469008968 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1150469008969 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 1150469008970 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1150469008971 homodimer interface [polypeptide binding]; other site 1150469008972 active site 1150469008973 SAM binding site [chemical binding]; other site 1150469008974 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 1150469008975 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1150469008976 active site 1150469008977 SAM binding site [chemical binding]; other site 1150469008978 homodimer interface [polypeptide binding]; other site 1150469008979 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 1150469008980 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 1150469008981 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 1150469008982 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1150469008983 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1150469008984 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1150469008985 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1150469008986 Coenzyme A binding pocket [chemical binding]; other site 1150469008987 Peptidase_C39 like family; Region: DUF3335; pfam11814 1150469008988 Domain of unknown function (DUF329); Region: DUF329; pfam03884 1150469008989 contig_81 1150469008990 Nif-specific regulatory protein; Region: nifA; TIGR01817 1150469008991 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1150469008992 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 1150469008993 Walker A motif; other site 1150469008994 ATP binding site [chemical binding]; other site 1150469008995 Walker B motif; other site 1150469008996 arginine finger; other site 1150469008997 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1150469008998 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469008999 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469009000 metal binding site [ion binding]; metal-binding site 1150469009001 active site 1150469009002 I-site; other site 1150469009003 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 1150469009004 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 1150469009005 ligand binding site [chemical binding]; other site 1150469009006 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1150469009007 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1150469009008 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 1150469009009 active site 1150469009010 phosphorylation site [posttranslational modification] 1150469009011 intermolecular recognition site; other site 1150469009012 dimerization interface [polypeptide binding]; other site 1150469009013 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 1150469009014 DNA binding residues [nucleotide binding] 1150469009015 dimerization interface [polypeptide binding]; other site 1150469009016 Predicted methyltransferase [General function prediction only]; Region: COG3897 1150469009017 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 1150469009018 UbiA prenyltransferase family; Region: UbiA; pfam01040 1150469009019 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1150469009020 RNA methyltransferase, RsmE family; Region: TIGR00046 1150469009021 glutamate--cysteine ligase; Region: PLN02611 1150469009022 Chorismate mutase type II; Region: CM_2; smart00830 1150469009023 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 1150469009024 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469009025 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469009026 dimer interface [polypeptide binding]; other site 1150469009027 putative CheW interface [polypeptide binding]; other site 1150469009028 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 1150469009029 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1150469009030 catalytic triad [active] 1150469009031 Response regulator receiver domain; Region: Response_reg; pfam00072 1150469009032 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 1150469009033 active site 1150469009034 phosphorylation site [posttranslational modification] 1150469009035 intermolecular recognition site; other site 1150469009036 dimerization interface [polypeptide binding]; other site 1150469009037 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 1150469009038 PAS domain; Region: PAS_9; pfam13426 1150469009039 putative active site [active] 1150469009040 heme pocket [chemical binding]; other site 1150469009041 PAS fold; Region: PAS_4; pfam08448 1150469009042 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1150469009043 PAS domain; Region: PAS; smart00091 1150469009044 putative active site [active] 1150469009045 heme pocket [chemical binding]; other site 1150469009046 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 1150469009047 dimer interface [polypeptide binding]; other site 1150469009048 phosphorylation site [posttranslational modification] 1150469009049 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 1150469009050 ATP binding site [chemical binding]; other site 1150469009051 Mg2+ binding site [ion binding]; other site 1150469009052 G-X-G motif; other site 1150469009053 DNA polymerase I; Provisional; Region: PRK05755 1150469009054 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1150469009055 active site 1150469009056 metal binding site 1 [ion binding]; metal-binding site 1150469009057 putative 5' ssDNA interaction site; other site 1150469009058 metal binding site 3; metal-binding site 1150469009059 metal binding site 2 [ion binding]; metal-binding site 1150469009060 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1150469009061 putative DNA binding site [nucleotide binding]; other site 1150469009062 putative metal binding site [ion binding]; other site 1150469009063 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 1150469009064 active site 1150469009065 catalytic site [active] 1150469009066 substrate binding site [chemical binding]; other site 1150469009067 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1150469009068 active site 1150469009069 DNA binding site [nucleotide binding] 1150469009070 catalytic site [active] 1150469009071 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1150469009072 TIR domain; Region: TIR_2; pfam13676 1150469009073 putative pectinesterase; Region: PLN02432; cl01911 1150469009074 Right handed beta helix region; Region: Beta_helix; pfam13229 1150469009075 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1150469009076 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1150469009077 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 1150469009078 DNA-binding site [nucleotide binding]; DNA binding site 1150469009079 RNA-binding motif; other site 1150469009080 protease TldD; Provisional; Region: tldD; PRK10735 1150469009081 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 1150469009082 UbiA prenyltransferase family; Region: UbiA; pfam01040 1150469009083 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1150469009084 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 1150469009085 S-adenosylmethionine binding site [chemical binding]; other site 1150469009086 Cupin domain; Region: Cupin_2; pfam07883 1150469009087 Ribulose bisphosphate carboxylase like proteins (RLPs) similar to R.rubrum RLP; Region: RLP_RrRLP; cd08210 1150469009088 dimer interface [polypeptide binding]; other site 1150469009089 active site 1150469009090 catalytic residue [active] 1150469009091 metal binding site [ion binding]; metal-binding site 1150469009092 glucokinase, proteobacterial type; Region: glk; TIGR00749 1150469009093 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1150469009094 nucleotide binding site [chemical binding]; other site 1150469009095 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 1150469009096 Paraquat-inducible protein A; Region: PqiA; pfam04403 1150469009097 Paraquat-inducible protein A; Region: PqiA; pfam04403 1150469009098 mce related protein; Region: MCE; pfam02470 1150469009099 mce related protein; Region: MCE; pfam02470 1150469009100 mce related protein; Region: MCE; pfam02470 1150469009101 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1150469009102 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1150469009103 bile acid transporter; Region: bass; TIGR00841 1150469009104 Sodium Bile acid symporter family; Region: SBF; cl17470 1150469009105 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1150469009106 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 1150469009107 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 1150469009108 active site 1150469009109 catalytic site [active] 1150469009110 substrate binding site [chemical binding]; other site 1150469009111 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1150469009112 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 1150469009113 dimer interface [polypeptide binding]; other site 1150469009114 conserved gate region; other site 1150469009115 putative PBP binding loops; other site 1150469009116 ABC-ATPase subunit interface; other site 1150469009117 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1150469009118 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 1150469009119 dimer interface [polypeptide binding]; other site 1150469009120 conserved gate region; other site 1150469009121 putative PBP binding loops; other site 1150469009122 ABC-ATPase subunit interface; other site 1150469009123 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1150469009124 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 1150469009125 CAP-like domain; other site 1150469009126 active site 1150469009127 primary dimer interface [polypeptide binding]; other site 1150469009128 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469009129 I-site; other site 1150469009130 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469009131 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469009132 metal binding site [ion binding]; metal-binding site 1150469009133 active site 1150469009134 I-site; other site 1150469009135 contig_79 1150469009136 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 1150469009137 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 1150469009138 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1150469009139 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1150469009140 Walker A/P-loop; other site 1150469009141 ATP binding site [chemical binding]; other site 1150469009142 Q-loop/lid; other site 1150469009143 ABC transporter signature motif; other site 1150469009144 Walker B; other site 1150469009145 D-loop; other site 1150469009146 H-loop/switch region; other site 1150469009147 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1150469009148 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 1150469009149 Walker A/P-loop; other site 1150469009150 ATP binding site [chemical binding]; other site 1150469009151 Q-loop/lid; other site 1150469009152 ABC transporter signature motif; other site 1150469009153 Walker B; other site 1150469009154 D-loop; other site 1150469009155 H-loop/switch region; other site 1150469009156 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1150469009157 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1150469009158 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 1150469009159 ABC-ATPase subunit interface; other site 1150469009160 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1150469009161 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 1150469009162 dimer interface [polypeptide binding]; other site 1150469009163 conserved gate region; other site 1150469009164 putative PBP binding loops; other site 1150469009165 ABC-ATPase subunit interface; other site 1150469009166 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 1150469009167 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1150469009168 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 1150469009169 S-adenosylmethionine binding site [chemical binding]; other site 1150469009170 contig_87 1150469009171 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1150469009172 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1150469009173 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1150469009174 active site 1150469009175 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1150469009176 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1150469009177 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 1150469009178 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1150469009179 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 1150469009180 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1150469009181 substrate binding site [chemical binding]; other site 1150469009182 oxyanion hole (OAH) forming residues; other site 1150469009183 trimer interface [polypeptide binding]; other site 1150469009184 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1150469009185 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 1150469009186 dimer interface [polypeptide binding]; other site 1150469009187 active site 1150469009188 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1150469009189 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1150469009190 DNA binding residues [nucleotide binding] 1150469009191 putative dimer interface [polypeptide binding]; other site 1150469009192 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05605 1150469009193 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1150469009194 acyl-activating enzyme (AAE) consensus motif; other site 1150469009195 putative AMP binding site [chemical binding]; other site 1150469009196 putative active site [active] 1150469009197 putative CoA binding site [chemical binding]; other site 1150469009198 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 1150469009199 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1150469009200 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 1150469009201 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 1150469009202 dimer interface [polypeptide binding]; other site 1150469009203 active site 1150469009204 acyl carrier protein; Provisional; Region: acpP; PRK00982 1150469009205 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1150469009206 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 1150469009207 trimer interface [polypeptide binding]; other site 1150469009208 active site 1150469009209 UDP-GlcNAc binding site [chemical binding]; other site 1150469009210 lipid binding site [chemical binding]; lipid-binding site 1150469009211 Membrane transport protein; Region: Mem_trans; cl09117 1150469009212 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1150469009213 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 1150469009214 active site 1150469009215 phosphorylation site [posttranslational modification] 1150469009216 intermolecular recognition site; other site 1150469009217 dimerization interface [polypeptide binding]; other site 1150469009218 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1150469009219 Zn2+ binding site [ion binding]; other site 1150469009220 Mg2+ binding site [ion binding]; other site 1150469009221 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1150469009222 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1150469009223 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1150469009224 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1150469009225 contig_123 1150469009226 Predicted membrane protein [Function unknown]; Region: COG3671 1150469009227 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1150469009228 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1150469009229 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1150469009230 dimerization interface [polypeptide binding]; other site 1150469009231 substrate binding pocket [chemical binding]; other site 1150469009232 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 1150469009233 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 1150469009234 homodimer interface [polypeptide binding]; other site 1150469009235 substrate-cofactor binding pocket; other site 1150469009236 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1150469009237 catalytic residue [active] 1150469009238 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1150469009239 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 1150469009240 dimer interface [polypeptide binding]; other site 1150469009241 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1150469009242 catalytic residue [active] 1150469009243 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 1150469009244 FOG: CBS domain [General function prediction only]; Region: COG0517 1150469009245 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 1150469009246 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 1150469009247 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 1150469009248 trimer interface [polypeptide binding]; other site 1150469009249 active site 1150469009250 substrate binding site [chemical binding]; other site 1150469009251 CoA binding site [chemical binding]; other site 1150469009252 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1150469009253 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 1150469009254 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1150469009255 catalytic residue [active] 1150469009256 contig_192 1150469009257 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 1150469009258 CHAT domain; Region: CHAT; pfam12770 1150469009259 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1150469009260 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1150469009261 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1150469009262 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469009263 Walker A/P-loop; other site 1150469009264 ATP binding site [chemical binding]; other site 1150469009265 Q-loop/lid; other site 1150469009266 ABC transporter signature motif; other site 1150469009267 Walker B; other site 1150469009268 D-loop; other site 1150469009269 H-loop/switch region; other site 1150469009270 TOBE domain; Region: TOBE_2; pfam08402 1150469009271 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1150469009272 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 1150469009273 conserved gate region; other site 1150469009274 dimer interface [polypeptide binding]; other site 1150469009275 putative PBP binding loops; other site 1150469009276 ABC-ATPase subunit interface; other site 1150469009277 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1150469009278 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 1150469009279 dimer interface [polypeptide binding]; other site 1150469009280 conserved gate region; other site 1150469009281 putative PBP binding loops; other site 1150469009282 ABC-ATPase subunit interface; other site 1150469009283 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 1150469009284 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 1150469009285 contig_292 1150469009286 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1150469009287 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1150469009288 contig_283 1150469009289 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 1150469009290 Phage terminase, small subunit; Region: Terminase_4; pfam05119 1150469009291 contig_52 1150469009292 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 1150469009293 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1150469009294 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 1150469009295 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1150469009296 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 1150469009297 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1150469009298 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 1150469009299 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12508 1150469009300 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12504 1150469009301 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 1150469009302 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1150469009303 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 1150469009304 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 1150469009306 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1150469009307 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 1150469009308 dimerization interface [polypeptide binding]; other site 1150469009309 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469009310 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469009311 dimer interface [polypeptide binding]; other site 1150469009312 putative CheW interface [polypeptide binding]; other site 1150469009313 FecCD transport family; Region: FecCD; pfam01032 1150469009314 ABC-ATPase subunit interface; other site 1150469009315 dimer interface [polypeptide binding]; other site 1150469009316 putative PBP binding regions; other site 1150469009317 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1150469009318 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1150469009319 intersubunit interface [polypeptide binding]; other site 1150469009320 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1150469009321 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 1150469009322 N-terminal plug; other site 1150469009323 ligand-binding site [chemical binding]; other site 1150469009324 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1150469009325 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 1150469009326 substrate binding pocket [chemical binding]; other site 1150469009327 membrane-bound complex binding site; other site 1150469009328 hinge residues; other site 1150469009329 PAS fold; Region: PAS_4; pfam08448 1150469009330 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 1150469009331 putative active site [active] 1150469009332 heme pocket [chemical binding]; other site 1150469009333 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 1150469009334 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1150469009335 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 1150469009336 putative active site [active] 1150469009337 heme pocket [chemical binding]; other site 1150469009338 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 1150469009339 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1150469009340 putative active site [active] 1150469009341 heme pocket [chemical binding]; other site 1150469009342 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 1150469009343 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1150469009344 putative active site [active] 1150469009345 heme pocket [chemical binding]; other site 1150469009346 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 1150469009347 putative active site [active] 1150469009348 heme pocket [chemical binding]; other site 1150469009349 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 1150469009350 dimer interface [polypeptide binding]; other site 1150469009351 phosphorylation site [posttranslational modification] 1150469009352 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 1150469009353 ATP binding site [chemical binding]; other site 1150469009354 Mg2+ binding site [ion binding]; other site 1150469009355 G-X-G motif; other site 1150469009356 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1150469009357 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 1150469009358 active site 1150469009359 phosphorylation site [posttranslational modification] 1150469009360 intermolecular recognition site; other site 1150469009361 dimerization interface [polypeptide binding]; other site 1150469009362 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1150469009363 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 1150469009364 active site 1150469009365 phosphorylation site [posttranslational modification] 1150469009366 intermolecular recognition site; other site 1150469009367 dimerization interface [polypeptide binding]; other site 1150469009368 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 1150469009369 dimerization interface [polypeptide binding]; other site 1150469009370 DNA binding residues [nucleotide binding] 1150469009371 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1150469009372 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 1150469009373 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1150469009374 contig_76 1150469009375 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 1150469009376 Transglycosylase; Region: Transgly; pfam00912 1150469009377 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1150469009378 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1150469009379 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1150469009380 MG2 domain; Region: A2M_N; pfam01835 1150469009381 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1150469009382 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 1150469009383 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 1150469009384 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1150469009385 substrate binding pocket [chemical binding]; other site 1150469009386 membrane-bound complex binding site; other site 1150469009387 hinge residues; other site 1150469009388 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1150469009389 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1150469009390 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 1150469009391 anti sigma factor interaction site; other site 1150469009392 regulatory phosphorylation site [posttranslational modification]; other site 1150469009393 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5381 1150469009394 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469009395 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469009396 metal binding site [ion binding]; metal-binding site 1150469009397 active site 1150469009398 I-site; other site 1150469009399 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1150469009400 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1150469009401 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 1150469009402 TrkA-N domain; Region: TrkA_N; pfam02254 1150469009403 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1150469009404 DctM-like transporters; Region: DctM; pfam06808 1150469009405 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1150469009406 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cd00562 1150469009407 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1150469009408 dimerization interface [polypeptide binding]; other site 1150469009409 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469009410 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469009411 dimer interface [polypeptide binding]; other site 1150469009412 putative CheW interface [polypeptide binding]; other site 1150469009413 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1150469009414 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1150469009415 active site 1150469009416 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1150469009417 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 1150469009418 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1150469009419 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 1150469009420 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 1150469009421 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1150469009422 active site 1150469009423 HIGH motif; other site 1150469009424 nucleotide binding site [chemical binding]; other site 1150469009425 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1150469009426 active site 1150469009427 KMSKS motif; other site 1150469009428 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1150469009429 tRNA binding surface [nucleotide binding]; other site 1150469009430 anticodon binding site; other site 1150469009431 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1150469009432 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 1150469009433 TfoX N-terminal domain; Region: TfoX_N; cl17592 1150469009434 fumarate hydratase; Provisional; Region: PRK15389 1150469009435 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1150469009436 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1150469009437 Stringent starvation protein B; Region: SspB; pfam04386 1150469009438 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469009439 AAA domain; Region: AAA_21; pfam13304 1150469009440 Walker A/P-loop; other site 1150469009441 contig_143 1150469009442 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1150469009443 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 1150469009444 dimer interface [polypeptide binding]; other site 1150469009445 active site 1150469009446 metal binding site [ion binding]; metal-binding site 1150469009447 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 1150469009448 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1150469009449 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 1150469009450 putative Mg++ binding site [ion binding]; other site 1150469009451 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 1150469009452 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1150469009453 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 1150469009454 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1150469009455 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1150469009456 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 1150469009457 active site 1150469009458 motif I; other site 1150469009459 Haloacid Dehalogenase Superfamily Class (subfamily) IIA; Region: HAD-SF-IIA; TIGR01460 1150469009460 motif II; other site 1150469009461 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; cl17915 1150469009462 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1150469009463 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1150469009464 HIGH motif; other site 1150469009465 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1150469009466 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1150469009467 active site 1150469009468 KMSKS motif; other site 1150469009469 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1150469009470 tRNA binding surface [nucleotide binding]; other site 1150469009471 anticodon binding site; other site 1150469009472 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1150469009473 Protein of unknown function (DUF2497); Region: DUF2497; cl11534 1150469009474 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1150469009475 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1150469009476 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 1150469009477 S-adenosylmethionine binding site [chemical binding]; other site 1150469009478 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 1150469009479 AMMECR1; Region: AMMECR1; pfam01871 1150469009480 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 1150469009481 putative ligand binding pocket/active site [active] 1150469009482 putative metal binding site [ion binding]; other site 1150469009483 contig_72 1150469009484 Competence-damaged protein; Region: CinA; pfam02464 1150469009485 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1150469009486 tetramer interfaces [polypeptide binding]; other site 1150469009487 binuclear metal-binding site [ion binding]; other site 1150469009488 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1150469009489 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1150469009490 Peptidase family M23; Region: Peptidase_M23; pfam01551 1150469009491 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1150469009492 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1150469009493 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1150469009494 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1150469009495 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 1150469009496 RNA binding site [nucleotide binding]; other site 1150469009497 argininosuccinate synthase; Provisional; Region: PRK13820 1150469009498 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 1150469009499 ANP binding site [chemical binding]; other site 1150469009500 Substrate Binding Site II [chemical binding]; other site 1150469009501 Substrate Binding Site I [chemical binding]; other site 1150469009502 GTP-binding protein YchF; Reviewed; Region: PRK09601 1150469009503 YchF GTPase; Region: YchF; cd01900 1150469009504 G1 box; other site 1150469009505 GTP/Mg2+ binding site [chemical binding]; other site 1150469009506 Switch I region; other site 1150469009507 G2 box; other site 1150469009508 Switch II region; other site 1150469009509 G3 box; other site 1150469009510 G4 box; other site 1150469009511 G5 box; other site 1150469009512 Protein of unknown function (DUF933); Region: YchF-GTPase_C; pfam06071 1150469009513 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 1150469009514 putative active site [active] 1150469009515 catalytic residue [active] 1150469009516 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1150469009517 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1150469009518 5S rRNA interface [nucleotide binding]; other site 1150469009519 CTC domain interface [polypeptide binding]; other site 1150469009520 L16 interface [polypeptide binding]; other site 1150469009521 Gram-negative porin; Region: Porin_4; pfam13609 1150469009522 Gram-negative porin; Region: Porin_4; pfam13609 1150469009523 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 1150469009524 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1150469009525 Peptidase M15; Region: Peptidase_M15_3; cl01194 1150469009526 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 1150469009527 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1150469009528 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1150469009529 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 1150469009530 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 1150469009531 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1150469009532 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1150469009533 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 1150469009534 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1150469009535 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 1150469009536 substrate binding pocket [chemical binding]; other site 1150469009537 membrane-bound complex binding site; other site 1150469009538 hinge residues; other site 1150469009539 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1150469009540 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1150469009541 Walker A/P-loop; other site 1150469009542 ATP binding site [chemical binding]; other site 1150469009543 Q-loop/lid; other site 1150469009544 ABC transporter signature motif; other site 1150469009545 Walker B; other site 1150469009546 D-loop; other site 1150469009547 H-loop/switch region; other site 1150469009548 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1150469009549 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 1150469009550 putative PBP binding loops; other site 1150469009551 dimer interface [polypeptide binding]; other site 1150469009552 ABC-ATPase subunit interface; other site 1150469009553 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 1150469009554 dimer interface [polypeptide binding]; other site 1150469009555 conserved gate region; other site 1150469009556 putative PBP binding loops; other site 1150469009557 ABC-ATPase subunit interface; other site 1150469009558 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 1150469009559 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1150469009560 Protein export membrane protein; Region: SecD_SecF; pfam02355 1150469009561 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1150469009562 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1150469009563 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1150469009564 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1150469009565 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 1150469009566 Walker A motif; other site 1150469009567 ATP binding site [chemical binding]; other site 1150469009568 Walker B motif; other site 1150469009569 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1150469009571 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 1150469009572 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 1150469009573 putative active site [active] 1150469009574 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1150469009575 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469009576 Walker A/P-loop; other site 1150469009577 ATP binding site [chemical binding]; other site 1150469009578 Q-loop/lid; other site 1150469009579 ABC transporter signature motif; other site 1150469009580 Walker B; other site 1150469009581 D-loop; other site 1150469009582 H-loop/switch region; other site 1150469009583 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1150469009584 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 1150469009585 HlyD family secretion protein; Region: HlyD_3; pfam13437 1150469009586 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1150469009587 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1150469009588 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1150469009589 Walker A/P-loop; other site 1150469009590 ATP binding site [chemical binding]; other site 1150469009591 Q-loop/lid; other site 1150469009592 ABC transporter signature motif; other site 1150469009593 Walker B; other site 1150469009594 D-loop; other site 1150469009595 H-loop/switch region; other site 1150469009596 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1150469009597 EamA-like transporter family; Region: EamA; pfam00892 1150469009598 Selenoprotein P, N terminal region; Region: SelP_N; pfam04592 1150469009599 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1150469009600 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 1150469009601 dimer interface [polypeptide binding]; other site 1150469009602 ssDNA binding site [nucleotide binding]; other site 1150469009603 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1150469009604 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1150469009605 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1150469009606 dimerization interface [polypeptide binding]; other site 1150469009607 ligand binding site [chemical binding]; other site 1150469009608 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1150469009609 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1150469009610 Walker A/P-loop; other site 1150469009611 ATP binding site [chemical binding]; other site 1150469009612 Q-loop/lid; other site 1150469009613 ABC transporter signature motif; other site 1150469009614 Walker B; other site 1150469009615 D-loop; other site 1150469009616 H-loop/switch region; other site 1150469009617 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1150469009618 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1150469009619 Walker A/P-loop; other site 1150469009620 ATP binding site [chemical binding]; other site 1150469009621 Q-loop/lid; other site 1150469009622 ABC transporter signature motif; other site 1150469009623 Walker B; other site 1150469009624 D-loop; other site 1150469009625 H-loop/switch region; other site 1150469009626 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1150469009627 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 1150469009628 TM-ABC transporter signature motif; other site 1150469009629 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1150469009630 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 1150469009631 TM-ABC transporter signature motif; other site 1150469009632 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1150469009633 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1150469009634 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469009635 ABC transporter signature motif; other site 1150469009636 Walker B; other site 1150469009637 D-loop; other site 1150469009638 H-loop/switch region; other site 1150469009639 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1150469009640 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469009641 dimer interface [polypeptide binding]; other site 1150469009642 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1150469009643 putative CheW interface [polypeptide binding]; other site 1150469009644 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 1150469009645 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469009646 dimer interface [polypeptide binding]; other site 1150469009647 putative CheW interface [polypeptide binding]; other site 1150469009648 Hemerythrin; Region: Hemerythrin; cd12107 1150469009649 Fe binding site [ion binding]; other site 1150469009650 contig_289 1150469009651 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 1150469009652 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 1150469009653 Phage capsid family; Region: Phage_capsid; pfam05065 1150469009654 Phage portal protein; Region: Phage_portal; pfam04860 1150469009655 Phage-related protein [Function unknown]; Region: COG4695 1150469009656 contig_71 1150469009657 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1150469009658 oligomeric interface; other site 1150469009659 putative active site [active] 1150469009660 homodimer interface [polypeptide binding]; other site 1150469009661 contig_27 1150469009662 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 1150469009663 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 1150469009664 Dicarboxylate transport; Region: DctA-YdbH; cl14674 1150469009665 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 1150469009666 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1150469009667 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1150469009668 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 1150469009669 FMN binding site [chemical binding]; other site 1150469009670 active site 1150469009671 catalytic residues [active] 1150469009672 substrate binding site [chemical binding]; other site 1150469009673 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469009674 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469009675 dimer interface [polypeptide binding]; other site 1150469009676 putative CheW interface [polypeptide binding]; other site 1150469009677 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 1150469009678 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1150469009679 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1150469009680 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1150469009681 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1150469009682 ABC1 family; Region: ABC1; pfam03109 1150469009683 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1150469009684 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1150469009685 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 1150469009686 dimerization interface [polypeptide binding]; other site 1150469009687 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469009688 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469009689 dimer interface [polypeptide binding]; other site 1150469009690 putative CheW interface [polypeptide binding]; other site 1150469009691 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1150469009692 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 1150469009693 ligand binding site [chemical binding]; other site 1150469009694 flexible hinge region; other site 1150469009695 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 1150469009696 putative switch regulator; other site 1150469009697 non-specific DNA interactions [nucleotide binding]; other site 1150469009698 DNA binding site [nucleotide binding] 1150469009699 sequence specific DNA binding site [nucleotide binding]; other site 1150469009700 putative cAMP binding site [chemical binding]; other site 1150469009701 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1150469009702 Septum formation initiator; Region: DivIC; pfam04977 1150469009703 TM1410 hypothetical-related protein; Region: DUF297; cl00997 1150469009704 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1150469009705 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1150469009706 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1150469009707 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 1150469009708 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 1150469009709 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 1150469009710 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1150469009711 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 1150469009712 FCD domain; Region: FCD; pfam07729 1150469009713 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1150469009714 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 1150469009715 catalytic residues [active] 1150469009716 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 1150469009717 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 1150469009718 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1150469009719 Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]; Region: GrxC; COG0695 1150469009720 Predicted membrane protein [Function unknown]; Region: COG3671 1150469009721 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 1150469009722 putative catalytic site [active] 1150469009723 putative phosphate binding site [ion binding]; other site 1150469009724 active site 1150469009725 metal binding site A [ion binding]; metal-binding site 1150469009726 DNA binding site [nucleotide binding] 1150469009727 putative AP binding site [nucleotide binding]; other site 1150469009728 putative metal binding site B [ion binding]; other site 1150469009729 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1150469009730 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 1150469009731 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1150469009732 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1150469009733 active site 1150469009734 HIGH motif; other site 1150469009735 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1150469009736 KMSK motif region; other site 1150469009737 tRNA binding surface [nucleotide binding]; other site 1150469009738 DALR anticodon binding domain; Region: DALR_1; smart00836 1150469009739 anticodon binding site; other site 1150469009740 Sporulation related domain; Region: SPOR; pfam05036 1150469009741 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1150469009742 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1150469009743 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 1150469009744 Peptidase family M50; Region: Peptidase_M50; pfam02163 1150469009745 active site 1150469009746 putative substrate binding region [chemical binding]; other site 1150469009747 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1150469009748 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1150469009749 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 1150469009750 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 1150469009751 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1150469009752 catalytic residue [active] 1150469009753 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1150469009754 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1150469009755 Coenzyme A binding pocket [chemical binding]; other site 1150469009756 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1150469009757 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1150469009758 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 1150469009759 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1150469009760 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1150469009761 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1150469009762 Hemerythrin; Region: Hemerythrin; cd12107 1150469009763 Fe binding site [ion binding]; other site 1150469009764 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1150469009765 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469009766 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469009767 dimer interface [polypeptide binding]; other site 1150469009768 putative CheW interface [polypeptide binding]; other site 1150469009769 Protein of unknown function, DUF485; Region: DUF485; pfam04341 1150469009770 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1150469009771 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1150469009772 Na binding site [ion binding]; other site 1150469009773 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 1150469009774 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 1150469009775 ligand binding site [chemical binding]; other site 1150469009776 flexible hinge region; other site 1150469009777 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the bacterial CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain. Members of CAP_ED, include CAP...; Region: CBS_pair_CAP-ED_DUF294_assoc_bac; cd04589 1150469009778 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1150469009779 metal binding triad; other site 1150469009780 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1150469009781 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1150469009782 active site 1150469009783 substrate binding site [chemical binding]; other site 1150469009784 catalytic site [active] 1150469009785 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1150469009786 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1150469009787 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 1150469009788 Walker A motif; other site 1150469009789 ATP binding site [chemical binding]; other site 1150469009790 Walker B motif; other site 1150469009791 arginine finger; other site 1150469009792 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1150469009793 Protein of unknown function (DUF917); Region: DUF917; pfam06032 1150469009794 contig_110 1150469009795 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1150469009796 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 1150469009797 N-terminal plug; other site 1150469009798 ligand-binding site [chemical binding]; other site 1150469009799 glutamine synthetase; Provisional; Region: glnA; PRK09469 1150469009800 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1150469009801 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1150469009802 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1150469009803 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1150469009804 hypothetical protein; Provisional; Region: PRK08912 1150469009805 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 1150469009806 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1150469009807 homodimer interface [polypeptide binding]; other site 1150469009808 catalytic residue [active] 1150469009809 contig_116 1150469009810 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1150469009811 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1150469009812 active site 1150469009813 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 1150469009814 dimerization interface [polypeptide binding]; other site 1150469009815 putative DNA binding site [nucleotide binding]; other site 1150469009816 putative Zn2+ binding site [ion binding]; other site 1150469009817 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1150469009818 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 1150469009819 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1150469009820 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 1150469009821 putative glutathione S-transferase; Provisional; Region: PRK10357 1150469009822 putative C-terminal domain interface [polypeptide binding]; other site 1150469009823 putative GSH binding site (G-site) [chemical binding]; other site 1150469009824 putative dimer interface [polypeptide binding]; other site 1150469009825 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1150469009826 dimer interface [polypeptide binding]; other site 1150469009827 N-terminal domain interface [polypeptide binding]; other site 1150469009828 putative substrate binding pocket (H-site) [chemical binding]; other site 1150469009829 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 1150469009830 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 1150469009831 hypothetical protein; Provisional; Region: PRK05170 1150469009832 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1150469009833 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1150469009834 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1150469009835 Walker A/P-loop; other site 1150469009836 ATP binding site [chemical binding]; other site 1150469009837 Q-loop/lid; other site 1150469009838 ABC transporter signature motif; other site 1150469009839 Walker B; other site 1150469009840 D-loop; other site 1150469009841 H-loop/switch region; other site 1150469009842 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1150469009843 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1150469009844 Walker A/P-loop; other site 1150469009845 ATP binding site [chemical binding]; other site 1150469009846 Q-loop/lid; other site 1150469009847 ABC transporter signature motif; other site 1150469009848 Walker B; other site 1150469009849 D-loop; other site 1150469009850 H-loop/switch region; other site 1150469009851 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1150469009852 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1150469009853 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 1150469009854 dimer interface [polypeptide binding]; other site 1150469009855 conserved gate region; other site 1150469009856 putative PBP binding loops; other site 1150469009857 ABC-ATPase subunit interface; other site 1150469009858 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1150469009859 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 1150469009860 dimer interface [polypeptide binding]; other site 1150469009861 conserved gate region; other site 1150469009862 putative PBP binding loops; other site 1150469009863 ABC-ATPase subunit interface; other site 1150469009864 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1150469009865 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1150469009866 putative ligand binding site [chemical binding]; other site 1150469009867 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 1150469009868 hypothetical protein; Reviewed; Region: PRK12497 1150469009869 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 1150469009870 putative GSH binding site [chemical binding]; other site 1150469009871 catalytic residues [active] 1150469009872 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1150469009873 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 1150469009874 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 1150469009875 dimerization interface [polypeptide binding]; other site 1150469009876 ATP binding site [chemical binding]; other site 1150469009877 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 1150469009878 dimerization interface [polypeptide binding]; other site 1150469009879 ATP binding site [chemical binding]; other site 1150469009880 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 1150469009881 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1150469009882 putative active site [active] 1150469009883 catalytic triad [active] 1150469009884 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 1150469009885 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1150469009886 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1150469009887 ATP binding site [chemical binding]; other site 1150469009888 active site 1150469009889 substrate binding site [chemical binding]; other site 1150469009890 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 1150469009891 non-specific DNA binding site [nucleotide binding]; other site 1150469009892 salt bridge; other site 1150469009893 sequence-specific DNA binding site [nucleotide binding]; other site 1150469009894 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1150469009895 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 1150469009896 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1150469009897 Protein of unknown function DUF45; Region: DUF45; pfam01863 1150469009898 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 1150469009899 TM-ABC transporter signature motif; other site 1150469009900 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 1150469009901 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1150469009902 TM-ABC transporter signature motif; other site 1150469009903 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1150469009904 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1150469009905 Walker A/P-loop; other site 1150469009906 ATP binding site [chemical binding]; other site 1150469009907 Q-loop/lid; other site 1150469009908 ABC transporter signature motif; other site 1150469009909 Walker B; other site 1150469009910 D-loop; other site 1150469009911 H-loop/switch region; other site 1150469009912 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1150469009913 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 1150469009914 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 1150469009915 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1150469009916 PAS domain; Region: PAS; smart00091 1150469009917 PAS fold; Region: PAS_2; pfam08446 1150469009918 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 1150469009919 PAS fold; Region: PAS_3; pfam08447 1150469009920 putative active site [active] 1150469009921 heme pocket [chemical binding]; other site 1150469009922 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469009923 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469009924 metal binding site [ion binding]; metal-binding site 1150469009925 active site 1150469009926 I-site; other site 1150469009927 EamA-like transporter family; Region: EamA; pfam00892 1150469009928 contig_10 1150469009929 dihydroorotase; Validated; Region: PRK09060 1150469009930 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 1150469009931 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 1150469009932 active site 1150469009933 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1150469009934 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 1150469009935 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1150469009936 Phage-related protein [Function unknown]; Region: COG4695; cl01923 1150469009937 Phage portal protein; Region: Phage_portal; pfam04860 1150469009938 terminase ATPase subunit; Provisional; Region: P; PHA02535 1150469009939 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 1150469009940 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 1150469009941 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 1150469009942 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 1150469009943 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 1150469009944 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 1150469009945 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 1150469009946 hypothetical protein; Region: PHA00649 1150469009947 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1150469009948 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 1150469009949 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 1150469009950 major tail sheath protein; Provisional; Region: FI; PHA02560 1150469009951 Phage tail tube protein FII; Region: Phage_tube; pfam04985 1150469009952 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1150469009953 contig_117 1150469009954 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469009955 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1150469009956 Walker A/P-loop; other site 1150469009957 ATP binding site [chemical binding]; other site 1150469009958 Q-loop/lid; other site 1150469009959 ABC transporter signature motif; other site 1150469009960 Walker B; other site 1150469009961 D-loop; other site 1150469009962 H-loop/switch region; other site 1150469009963 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1150469009964 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469009965 Walker A/P-loop; other site 1150469009966 ATP binding site [chemical binding]; other site 1150469009967 Q-loop/lid; other site 1150469009968 ABC transporter signature motif; other site 1150469009969 Walker B; other site 1150469009970 D-loop; other site 1150469009971 H-loop/switch region; other site 1150469009972 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1150469009973 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 1150469009974 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1150469009975 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1150469009976 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1150469009977 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 1150469009978 DNA-binding site [nucleotide binding]; DNA binding site 1150469009979 RNA-binding motif; other site 1150469009980 pyruvate carboxylase; Reviewed; Region: PRK12999 1150469009981 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1150469009982 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1150469009983 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1150469009984 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1150469009985 active site 1150469009986 catalytic residues [active] 1150469009987 metal binding site [ion binding]; metal-binding site 1150469009988 homodimer binding site [polypeptide binding]; other site 1150469009989 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 1150469009990 carboxyltransferase (CT) interaction site; other site 1150469009991 biotinylation site [posttranslational modification]; other site 1150469009992 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1150469009993 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1150469009994 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469009995 Walker A/P-loop; other site 1150469009996 ATP binding site [chemical binding]; other site 1150469009997 Q-loop/lid; other site 1150469009998 ABC transporter signature motif; other site 1150469009999 Walker B; other site 1150469010000 D-loop; other site 1150469010001 H-loop/switch region; other site 1150469010002 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1150469010003 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 1150469010004 non-specific DNA binding site [nucleotide binding]; other site 1150469010005 salt bridge; other site 1150469010006 sequence-specific DNA binding site [nucleotide binding]; other site 1150469010007 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 1150469010008 dimer interface [polypeptide binding]; other site 1150469010009 putative tRNA-binding site [nucleotide binding]; other site 1150469010010 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 1150469010011 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1150469010012 dimerization interface [polypeptide binding]; other site 1150469010013 domain crossover interface; other site 1150469010014 redox-dependent activation switch; other site 1150469010015 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1150469010016 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1150469010017 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1150469010018 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 1150469010019 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 1150469010020 inhibitor-cofactor binding pocket; inhibition site 1150469010021 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1150469010022 catalytic residue [active] 1150469010023 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 1150469010024 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 1150469010025 NADP binding site [chemical binding]; other site 1150469010026 homopentamer interface [polypeptide binding]; other site 1150469010027 substrate binding site [chemical binding]; other site 1150469010028 active site 1150469010029 Membrane fusogenic activity; Region: BMFP; pfam04380 1150469010030 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 1150469010031 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1150469010032 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1150469010033 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 1150469010034 dimer interface [polypeptide binding]; other site 1150469010035 phosphorylation site [posttranslational modification] 1150469010036 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 1150469010037 ATP binding site [chemical binding]; other site 1150469010038 Mg2+ binding site [ion binding]; other site 1150469010039 G-X-G motif; other site 1150469010040 Response regulator receiver domain; Region: Response_reg; pfam00072 1150469010041 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 1150469010042 active site 1150469010043 phosphorylation site [posttranslational modification] 1150469010044 intermolecular recognition site; other site 1150469010045 dimerization interface [polypeptide binding]; other site 1150469010046 contig_98 1150469010047 FtsH Extracellular; Region: FtsH_ext; pfam06480 1150469010048 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1150469010049 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 1150469010050 Walker A motif; other site 1150469010051 ATP binding site [chemical binding]; other site 1150469010052 Walker B motif; other site 1150469010053 arginine finger; other site 1150469010054 Peptidase family M41; Region: Peptidase_M41; pfam01434 1150469010055 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 1150469010056 dihydropteroate synthase; Region: DHPS; TIGR01496 1150469010057 substrate binding pocket [chemical binding]; other site 1150469010058 dimer interface [polypeptide binding]; other site 1150469010059 inhibitor binding site; inhibition site 1150469010060 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 1150469010061 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 1150469010062 active site 1150469010063 substrate binding site [chemical binding]; other site 1150469010064 metal binding site [ion binding]; metal-binding site 1150469010065 Uncharacterized conserved protein [Function unknown]; Region: COG3287 1150469010066 FIST N domain; Region: FIST; pfam08495 1150469010067 FIST C domain; Region: FIST_C; pfam10442 1150469010068 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469010069 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469010070 dimer interface [polypeptide binding]; other site 1150469010071 putative CheW interface [polypeptide binding]; other site 1150469010072 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 1150469010073 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1150469010074 active site 1150469010075 DNA polymerase IV; Validated; Region: PRK02406 1150469010076 DNA binding site [nucleotide binding] 1150469010077 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1150469010078 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1150469010079 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 1150469010080 P-loop; other site 1150469010081 Magnesium ion binding site [ion binding]; other site 1150469010082 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 1150469010083 HEAT repeats; Region: HEAT_2; pfam13646 1150469010084 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1150469010085 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 1150469010086 catalytic loop [active] 1150469010087 iron binding site [ion binding]; other site 1150469010088 2-isopropylmalate synthase; Validated; Region: PRK03739 1150469010089 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1150469010090 active site 1150469010091 catalytic residues [active] 1150469010092 metal binding site [ion binding]; metal-binding site 1150469010093 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1150469010094 putative transporter; Validated; Region: PRK03818 1150469010095 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1150469010096 TrkA-C domain; Region: TrkA_C; pfam02080 1150469010097 TrkA-C domain; Region: TrkA_C; pfam02080 1150469010098 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 1150469010099 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 1150469010100 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 1150469010101 intersubunit interface [polypeptide binding]; other site 1150469010102 active site 1150469010103 zinc binding site [ion binding]; other site 1150469010104 Na+ binding site [ion binding]; other site 1150469010105 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 1150469010106 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1150469010107 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1150469010108 TM-ABC transporter signature motif; other site 1150469010109 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1150469010110 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1150469010111 Walker A/P-loop; other site 1150469010112 ATP binding site [chemical binding]; other site 1150469010113 Q-loop/lid; other site 1150469010114 ABC transporter signature motif; other site 1150469010115 Walker B; other site 1150469010116 D-loop; other site 1150469010117 H-loop/switch region; other site 1150469010118 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1150469010119 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 1150469010120 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1150469010121 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1150469010122 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1150469010123 NAD(P) binding site [chemical binding]; other site 1150469010124 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1150469010125 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1150469010126 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1150469010127 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1150469010128 substrate binding site [chemical binding]; other site 1150469010129 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1150469010130 active site 1150469010131 catalytic residues [active] 1150469010132 sorbitol dehydrogenase; Provisional; Region: PRK07067 1150469010133 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1150469010134 NAD(P) binding site [chemical binding]; other site 1150469010135 active site 1150469010136 Nitrogenase_vnfN_like: VnfN subunit of the VnfEN complex-like. This group in addition to VnfN contains a subset of the beta subunit of the nitrogenase MoFe protein and NifN-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent...; Region: Nitrogenase_VnfN_like; cd01971 1150469010137 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 1150469010138 Nitrogenase_VnfE_like: VnfE subunit of the VnfEN complex_like. This group in addition to VnfE contains a subset of the alpha subunit of the nitrogenase MoFe protein and NifE-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent...; Region: Nitrogenase_VnfE_like; cd01972 1150469010139 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 1150469010140 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 1150469010141 nitrogenase iron protein; Region: nifH; TIGR01287 1150469010142 Nucleotide-binding sites [chemical binding]; other site 1150469010143 Walker A motif; other site 1150469010144 Switch I region of nucleotide binding site; other site 1150469010145 Fe4S4 binding sites [ion binding]; other site 1150469010146 Switch II region of nucleotide binding site; other site 1150469010147 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1150469010148 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 1150469010149 FeS/SAM binding site; other site 1150469010150 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1150469010151 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1150469010152 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 1150469010153 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 1150469010154 binding surface 1150469010155 TPR motif; other site 1150469010156 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1150469010157 Methyltransferase domain; Region: Methyltransf_18; pfam12847 1150469010158 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 1150469010159 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1150469010160 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 1150469010161 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 1150469010162 binding surface 1150469010163 TPR motif; other site 1150469010164 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1150469010165 PHP domain; Region: PHP; pfam02811 1150469010166 putative active site [active] 1150469010167 putative PHP Thumb interface [polypeptide binding]; other site 1150469010168 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 1150469010169 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 1150469010170 generic binding surface I; other site 1150469010171 generic binding surface II; other site 1150469010172 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 1150469010173 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 1150469010174 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 1150469010175 ATP binding site [chemical binding]; other site 1150469010176 substrate binding site [chemical binding]; other site 1150469010177 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 1150469010178 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1150469010179 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1150469010180 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1150469010181 Ligand binding site; other site 1150469010182 Putative Catalytic site; other site 1150469010183 DXD motif; other site 1150469010184 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1150469010185 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 1150469010186 substrate binding pocket [chemical binding]; other site 1150469010187 membrane-bound complex binding site; other site 1150469010188 hinge residues; other site 1150469010189 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 1150469010190 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 1150469010191 conserved gate region; other site 1150469010192 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 1150469010193 ABC-ATPase subunit interface; other site 1150469010194 putative PBP binding loops; other site 1150469010195 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 1150469010196 dimer interface [polypeptide binding]; other site 1150469010197 conserved gate region; other site 1150469010198 ABC-ATPase subunit interface; other site 1150469010199 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1150469010200 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1150469010201 Walker A/P-loop; other site 1150469010202 ATP binding site [chemical binding]; other site 1150469010203 Q-loop/lid; other site 1150469010204 ABC transporter signature motif; other site 1150469010205 Walker B; other site 1150469010206 D-loop; other site 1150469010207 H-loop/switch region; other site 1150469010208 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 1150469010209 homoserine O-succinyltransferase; Provisional; Region: PRK05368 1150469010210 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 1150469010211 proposed active site lysine [active] 1150469010212 conserved cys residue [active] 1150469010213 Uncharacterized conserved protein (DUF2161); Region: DUF2161; cl02298 1150469010214 ribulose bisphosphate carboxylase; Provisional; Region: PRK13475 1150469010215 Ribulose bisphosphate carboxylase large chain, Form II; Region: RuBisCO_large_II; cd08211 1150469010216 dimer interface [polypeptide binding]; other site 1150469010217 active site 1150469010218 catalytic residue [active] 1150469010219 metal binding site [ion binding]; metal-binding site 1150469010220 Response regulator receiver domain; Region: Response_reg; pfam00072 1150469010221 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 1150469010222 active site 1150469010223 phosphorylation site [posttranslational modification] 1150469010224 intermolecular recognition site; other site 1150469010225 dimerization interface [polypeptide binding]; other site 1150469010226 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1150469010227 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1150469010228 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1150469010229 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1150469010230 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1150469010231 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1150469010232 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1150469010233 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1150469010234 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1150469010235 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 1150469010236 IMP binding site; other site 1150469010237 dimer interface [polypeptide binding]; other site 1150469010238 partial ornithine binding site; other site 1150469010239 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1150469010240 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1150469010241 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1150469010242 catalytic site [active] 1150469010243 subunit interface [polypeptide binding]; other site 1150469010244 Yqey-like protein; Region: YqeY; pfam09424 1150469010245 CHC2 zinc finger; Region: zf-CHC2; cl17510 1150469010246 DNA primase, catalytic core; Region: dnaG; TIGR01391 1150469010247 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1150469010248 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 1150469010249 active site 1150469010250 metal binding site [ion binding]; metal-binding site 1150469010251 interdomain interaction site; other site 1150469010252 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1150469010253 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1150469010254 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1150469010255 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1150469010256 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 1150469010257 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1150469010258 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1150469010259 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 1150469010260 DNA binding residues [nucleotide binding] 1150469010261 CHASE domain; Region: CHASE; pfam03924 1150469010262 Cache domain; Region: Cache_1; pfam02743 1150469010263 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1150469010264 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1150469010265 metal binding site [ion binding]; metal-binding site 1150469010266 active site 1150469010267 I-site; other site 1150469010268 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1150469010269 contig_4 1150469010270 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1150469010271 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1150469010272 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1150469010273 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 1150469010274 motif II; other site 1150469010275 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1150469010276 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469010277 dimer interface [polypeptide binding]; other site 1150469010278 putative CheW interface [polypeptide binding]; other site 1150469010279 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 1150469010280 ATP binding site [chemical binding]; other site 1150469010281 Mg2+ binding site [ion binding]; other site 1150469010282 G-X-G motif; other site 1150469010283 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 1150469010284 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1150469010285 putative NAD(P) binding site [chemical binding]; other site 1150469010286 active site 1150469010287 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1150469010288 catalytic site [active] 1150469010289 putative active site [active] 1150469010290 putative substrate binding site [chemical binding]; other site 1150469010291 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 1150469010292 putative active site [active] 1150469010293 FOG: CBS domain [General function prediction only]; Region: COG0517 1150469010294 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 1150469010295 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 1150469010296 OstA-like protein; Region: OstA; cl00844 1150469010297 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1150469010298 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1150469010299 Walker A/P-loop; other site 1150469010300 ATP binding site [chemical binding]; other site 1150469010301 Q-loop/lid; other site 1150469010302 ABC transporter signature motif; other site 1150469010303 Walker B; other site 1150469010304 D-loop; other site 1150469010305 H-loop/switch region; other site 1150469010306 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1150469010307 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1150469010308 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1150469010309 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1150469010310 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 1150469010311 active site 1150469010312 phosphorylation site [posttranslational modification] 1150469010313 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1150469010314 EamA-like transporter family; Region: EamA; pfam00892 1150469010315 EamA-like transporter family; Region: EamA; pfam00892 1150469010316 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1150469010317 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 1150469010318 non-specific DNA binding site [nucleotide binding]; other site 1150469010319 salt bridge; other site 1150469010320 sequence-specific DNA binding site [nucleotide binding]; other site 1150469010321 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 1150469010322 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1150469010323 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 1150469010324 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 1150469010325 DsbD alpha interface [polypeptide binding]; other site 1150469010326 catalytic residues [active] 1150469010327 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 1150469010328 Putative transcriptional regulator [Transcription]; Region: COG1678 1150469010329 Phasin protein; Region: Phasin_2; pfam09361 1150469010330 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1150469010331 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1150469010332 adenylosuccinate lyase; Provisional; Region: PRK07492 1150469010333 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1150469010334 tetramer interface [polypeptide binding]; other site 1150469010335 active site 1150469010336 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1150469010337 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 1150469010338 hypothetical protein; Provisional; Region: PRK06762 1150469010339 Predicted kinase [General function prediction only]; Region: COG0645 1150469010340 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1150469010341 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 1150469010342 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1150469010343 catalytic residue [active] 1150469010344 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1150469010345 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1150469010346 Walker A/P-loop; other site 1150469010347 ATP binding site [chemical binding]; other site 1150469010348 Q-loop/lid; other site 1150469010349 ABC transporter signature motif; other site 1150469010350 Walker B; other site 1150469010351 D-loop; other site 1150469010352 H-loop/switch region; other site 1150469010353 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 1150469010354 dimer interface [polypeptide binding]; other site 1150469010355 conserved gate region; other site 1150469010356 putative PBP binding loops; other site 1150469010357 ABC-ATPase subunit interface; other site 1150469010358 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1150469010359 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 1150469010360 dimer interface [polypeptide binding]; other site 1150469010361 conserved gate region; other site 1150469010362 putative PBP binding loops; other site 1150469010363 ABC-ATPase subunit interface; other site 1150469010364 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1150469010365 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1150469010366 HAMP domain; Region: HAMP; pfam00672 1150469010367 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1150469010368 dimer interface [polypeptide binding]; other site 1150469010369 putative CheW interface [polypeptide binding]; other site 1150469010370 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1150469010371 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 1150469010372 substrate binding pocket [chemical binding]; other site 1150469010373 membrane-bound complex binding site; other site 1150469010374 hinge residues; other site 1150469010375 FeoC like transcriptional regulator; Region: FeoC; pfam09012 1150469010376 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 1150469010377 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1150469010378 G1 box; other site 1150469010379 GTP/Mg2+ binding site [chemical binding]; other site 1150469010380 Switch I region; other site 1150469010381 G2 box; other site 1150469010382 G3 box; other site 1150469010383 Switch II region; other site 1150469010384 G4 box; other site 1150469010385 G5 box; other site 1150469010386 Nucleoside recognition; Region: Gate; pfam07670 1150469010387 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1150469010388 FeoA domain; Region: FeoA; pfam04023 1150469010389 PAS domain; Region: PAS_9; pfam13426 1150469010390 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1150469010391 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 1150469010392 ATP binding site [chemical binding]; other site 1150469010393 Mg2+ binding site [ion binding]; other site 1150469010394 G-X-G motif; other site 1150469010395 response regulator FixJ; Provisional; Region: fixJ; PRK09390 1150469010396 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 1150469010397 active site 1150469010398 phosphorylation site [posttranslational modification] 1150469010399 intermolecular recognition site; other site 1150469010400 dimerization interface [polypeptide binding]; other site 1150469010401 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 1150469010402 dimerization interface [polypeptide binding]; other site 1150469010403 DNA binding residues [nucleotide binding] 1150469010404 CheB methylesterase; Region: CheB_methylest; pfam01339 1150469010405 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1150469010406 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1150469010407 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1150469010408 PAS domain; Region: PAS_10; pfam13596 1150469010409 PhosphatidylEthanolamine-Binding Protein (PEBP) domain; Region: PEBP; cl00227