-- dump date 20140619_061020 -- class Genbank::misc_feature -- table misc_feature_note -- id note 439235000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 439235000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 439235000003 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 439235000004 Walker A motif; other site 439235000005 ATP binding site [chemical binding]; other site 439235000006 Walker B motif; other site 439235000007 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 439235000008 DnaA box-binding interface [nucleotide binding]; other site 439235000009 FAD binding domain; Region: FAD_binding_4; pfam01565 439235000010 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 439235000011 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cd02258 439235000012 active site 439235000013 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 439235000014 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 439235000015 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 439235000016 dimerization interface [polypeptide binding]; other site 439235000017 PAS fold; Region: PAS_4; pfam08448 439235000018 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 439235000019 putative active site [active] 439235000020 heme pocket [chemical binding]; other site 439235000021 PAS domain S-box; Region: sensory_box; TIGR00229 439235000022 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 439235000023 putative active site [active] 439235000024 heme pocket [chemical binding]; other site 439235000025 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 439235000026 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235000027 putative active site [active] 439235000028 heme pocket [chemical binding]; other site 439235000029 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235000030 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 439235000031 dimer interface [polypeptide binding]; other site 439235000032 phosphorylation site [posttranslational modification] 439235000033 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 439235000034 ATP binding site [chemical binding]; other site 439235000035 Mg2+ binding site [ion binding]; other site 439235000036 G-X-G motif; other site 439235000037 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 439235000038 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235000039 acyl-activating enzyme (AAE) consensus motif; other site 439235000040 AMP binding site [chemical binding]; other site 439235000041 active site 439235000042 CoA binding site [chemical binding]; other site 439235000043 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 439235000044 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 439235000045 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 439235000046 Walker A/P-loop; other site 439235000047 ATP binding site [chemical binding]; other site 439235000048 Q-loop/lid; other site 439235000049 ABC transporter signature motif; other site 439235000050 Walker B; other site 439235000051 D-loop; other site 439235000052 H-loop/switch region; other site 439235000053 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 439235000054 putative carbohydrate binding site [chemical binding]; other site 439235000055 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439235000056 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 439235000057 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439235000058 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 439235000059 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 439235000060 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 439235000061 FeS/SAM binding site; other site 439235000062 Radical SAM superfamily; Region: Radical_SAM; pfam04055 439235000063 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 439235000064 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 439235000065 Probable Catalytic site; other site 439235000066 metal-binding site 439235000067 GeoRSP system radical SAM/SPASM protein; Region: GeoRSP_rSAM; TIGR04303 439235000068 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 439235000069 FeS/SAM binding site; other site 439235000070 Domain of unknown function (DUF389); Region: DUF389; cl00781 439235000071 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 439235000072 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 439235000073 active site 439235000074 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 439235000075 active site 439235000076 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 439235000077 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 439235000078 ATP-grasp domain; Region: ATP-grasp_4; cl17255 439235000079 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 439235000080 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 439235000081 ATP-grasp domain; Region: ATP-grasp_4; cl17255 439235000082 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 439235000083 IMP binding site; other site 439235000084 dimer interface [polypeptide binding]; other site 439235000085 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 439235000086 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 439235000087 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 439235000088 B12 binding site [chemical binding]; other site 439235000089 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 439235000090 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439235000091 DNA-binding site [nucleotide binding]; DNA binding site 439235000092 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 439235000093 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 439235000094 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 439235000095 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 439235000096 IHF dimer interface [polypeptide binding]; other site 439235000097 IHF - DNA interface [nucleotide binding]; other site 439235000098 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 439235000099 DNA polymerase III subunit delta'; Validated; Region: PRK08485 439235000100 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 439235000101 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 439235000102 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 439235000103 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 439235000104 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 439235000105 active site 439235000106 HIGH motif; other site 439235000107 KMSKS motif; other site 439235000108 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 439235000109 tRNA binding surface [nucleotide binding]; other site 439235000110 anticodon binding site; other site 439235000111 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 439235000112 dimer interface [polypeptide binding]; other site 439235000113 putative tRNA-binding site [nucleotide binding]; other site 439235000114 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 439235000115 Helix-turn-helix domain; Region: HTH_18; pfam12833 439235000116 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439235000117 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 439235000118 Radical SAM superfamily; Region: Radical_SAM; pfam04055 439235000119 FeS/SAM binding site; other site 439235000120 haloalkane dehalogenase; Provisional; Region: PRK00870 439235000121 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 439235000122 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 439235000123 metal ion-dependent adhesion site (MIDAS); other site 439235000124 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 439235000125 YcfA-like protein; Region: YcfA; pfam07927 439235000126 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 439235000127 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 439235000128 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235000129 homodimer interface [polypeptide binding]; other site 439235000130 catalytic residue [active] 439235000131 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439235000132 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 439235000133 substrate binding pocket [chemical binding]; other site 439235000134 membrane-bound complex binding site; other site 439235000135 hinge residues; other site 439235000136 Hemerythrin; Region: Hemerythrin; cd12107 439235000137 Fe binding site [ion binding]; other site 439235000138 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 439235000139 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; cl03295 439235000140 nucleotide binding pocket [chemical binding]; other site 439235000141 K-X-D-G motif; other site 439235000142 catalytic site [active] 439235000143 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 439235000144 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 439235000145 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 439235000146 Dimer interface [polypeptide binding]; other site 439235000147 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 439235000148 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 439235000149 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 439235000150 dimer interface [polypeptide binding]; other site 439235000151 motif 1; other site 439235000152 active site 439235000153 motif 2; other site 439235000154 motif 3; other site 439235000155 galactokinase; Provisional; Region: PRK03817 439235000156 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 439235000157 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 439235000158 Recombination protein O N terminal; Region: RecO_N; pfam11967 439235000159 Recombination protein O C terminal; Region: RecO_C; pfam02565 439235000160 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 439235000161 MgtE intracellular N domain; Region: MgtE_N; smart00924 439235000162 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 439235000163 Divalent cation transporter; Region: MgtE; pfam01769 439235000164 SurA N-terminal domain; Region: SurA_N; pfam09312 439235000165 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 439235000166 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 439235000167 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 439235000168 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 439235000169 ATP binding site [chemical binding]; other site 439235000170 putative Mg++ binding site [ion binding]; other site 439235000171 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 439235000172 nucleotide binding region [chemical binding]; other site 439235000173 ATP-binding site [chemical binding]; other site 439235000174 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 439235000175 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 439235000176 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235000177 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235000178 Amino acid permease; Region: AA_permease; pfam00324 439235000179 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 439235000180 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 439235000181 PAS domain; Region: PAS; smart00091 439235000182 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 439235000183 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 439235000184 Walker A motif; other site 439235000185 ATP binding site [chemical binding]; other site 439235000186 Walker B motif; other site 439235000187 arginine finger; other site 439235000188 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235000189 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 439235000190 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 439235000191 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 439235000192 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 439235000193 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235000194 active site 439235000195 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 439235000196 acetyl-CoA acetyltransferase; Provisional; Region: PRK06205 439235000197 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 439235000198 dimer interface [polypeptide binding]; other site 439235000199 active site 439235000200 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 439235000201 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 439235000202 dimer interface [polypeptide binding]; other site 439235000203 active site 439235000204 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235000205 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235000206 active site 439235000207 enoyl-CoA hydratase; Provisional; Region: PRK07658 439235000208 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 439235000209 substrate binding site [chemical binding]; other site 439235000210 oxyanion hole (OAH) forming residues; other site 439235000211 trimer interface [polypeptide binding]; other site 439235000212 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 439235000213 Coenzyme A transferase; Region: CoA_trans; cl17247 439235000214 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 439235000215 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 439235000216 Part of AAA domain; Region: AAA_19; pfam13245 439235000217 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 439235000218 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235000219 Walker A/P-loop; other site 439235000220 ATP binding site [chemical binding]; other site 439235000221 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235000222 Walker B; other site 439235000223 D-loop; other site 439235000224 H-loop/switch region; other site 439235000225 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 439235000226 putative active site [active] 439235000227 putative metal-binding site [ion binding]; other site 439235000228 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 439235000229 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 439235000230 putative ligand binding site [chemical binding]; other site 439235000231 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 439235000232 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235000233 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 439235000234 acyl-activating enzyme (AAE) consensus motif; other site 439235000235 putative AMP binding site [chemical binding]; other site 439235000236 putative active site [active] 439235000237 putative CoA binding site [chemical binding]; other site 439235000238 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 439235000239 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 439235000240 Walker A/P-loop; other site 439235000241 ATP binding site [chemical binding]; other site 439235000242 Q-loop/lid; other site 439235000243 ABC transporter signature motif; other site 439235000244 Walker B; other site 439235000245 D-loop; other site 439235000246 H-loop/switch region; other site 439235000247 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 439235000248 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 439235000249 Walker A/P-loop; other site 439235000250 ATP binding site [chemical binding]; other site 439235000251 Q-loop/lid; other site 439235000252 ABC transporter signature motif; other site 439235000253 Walker B; other site 439235000254 D-loop; other site 439235000255 H-loop/switch region; other site 439235000256 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 439235000257 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 439235000258 TM-ABC transporter signature motif; other site 439235000259 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439235000260 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 439235000261 TM-ABC transporter signature motif; other site 439235000262 Domain of unknown function DUF11; Region: DUF11; pfam01345 439235000263 conserved repeat domain; Region: B_ant_repeat; TIGR01451 439235000264 Domain of unknown function DUF11; Region: DUF11; pfam01345 439235000265 conserved repeat domain; Region: B_ant_repeat; TIGR01451 439235000266 conserved repeat domain; Region: B_ant_repeat; TIGR01451 439235000267 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 439235000268 conserved repeat domain; Region: B_ant_repeat; TIGR01451 439235000269 Protein of unknown function, DUF481; Region: DUF481; cl01213 439235000270 conserved repeat domain; Region: B_ant_repeat; TIGR01451 439235000271 SurA N-terminal domain; Region: SurA_N_3; cl07813 439235000272 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 439235000273 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235000274 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 439235000275 Beta-propeller repeat; Region: SBBP; pfam06739 439235000276 Beta-propeller repeat; Region: SBBP; pfam06739 439235000277 Domain of unknown function DUF11; Region: DUF11; cl17728 439235000278 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 439235000279 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 439235000280 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 439235000281 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 439235000282 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235000283 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 439235000284 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235000285 putative active site [active] 439235000286 heme pocket [chemical binding]; other site 439235000287 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 439235000288 dimer interface [polypeptide binding]; other site 439235000289 phosphorylation site [posttranslational modification] 439235000290 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 439235000291 ATP binding site [chemical binding]; other site 439235000292 Mg2+ binding site [ion binding]; other site 439235000293 G-X-G motif; other site 439235000294 Response regulator receiver domain; Region: Response_reg; pfam00072 439235000295 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 439235000296 active site 439235000297 phosphorylation site [posttranslational modification] 439235000298 intermolecular recognition site; other site 439235000299 dimerization interface [polypeptide binding]; other site 439235000300 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 439235000301 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 439235000302 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 439235000303 FeS/SAM binding site; other site 439235000304 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 439235000305 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 439235000306 FeS/SAM binding site; other site 439235000307 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 439235000308 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 439235000309 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 439235000310 FeS/SAM binding site; other site 439235000311 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 439235000312 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 439235000313 FeS/SAM binding site; other site 439235000314 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 439235000315 putative substrate translocation pore; other site 439235000316 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439235000317 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439235000318 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439235000319 metal binding site [ion binding]; metal-binding site 439235000320 active site 439235000321 I-site; other site 439235000322 AAA ATPase domain; Region: AAA_16; pfam13191 439235000323 HEAT repeats; Region: HEAT_2; pfam13646 439235000324 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 439235000325 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 439235000326 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 439235000327 dimer interface [polypeptide binding]; other site 439235000328 putative CheW interface [polypeptide binding]; other site 439235000329 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 439235000330 Methyltransferase domain; Region: Methyltransf_31; pfam13847 439235000331 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 439235000332 S-adenosylmethionine binding site [chemical binding]; other site 439235000333 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 439235000334 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 439235000335 catalytic core [active] 439235000336 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 439235000337 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 439235000338 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 439235000339 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 439235000340 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235000341 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235000342 acetyl-CoA acetyltransferase; Validated; Region: PRK08257 439235000343 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 439235000344 active site 439235000345 Nitronate monooxygenase; Region: NMO; pfam03060 439235000346 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 439235000347 FMN binding site [chemical binding]; other site 439235000348 substrate binding site [chemical binding]; other site 439235000349 putative catalytic residue [active] 439235000350 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 439235000351 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 439235000352 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235000353 active site 439235000354 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 439235000355 PAS domain S-box; Region: sensory_box; TIGR00229 439235000356 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 439235000357 putative active site [active] 439235000358 heme pocket [chemical binding]; other site 439235000359 PAS domain; Region: PAS_9; pfam13426 439235000360 PAS domain S-box; Region: sensory_box; TIGR00229 439235000361 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 439235000362 putative active site [active] 439235000363 heme pocket [chemical binding]; other site 439235000364 PAS domain; Region: PAS_9; pfam13426 439235000365 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 439235000366 putative active site [active] 439235000367 heme pocket [chemical binding]; other site 439235000368 PAS domain S-box; Region: sensory_box; TIGR00229 439235000369 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 439235000370 putative active site [active] 439235000371 heme pocket [chemical binding]; other site 439235000372 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 439235000373 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 439235000374 putative active site [active] 439235000375 heme pocket [chemical binding]; other site 439235000376 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 439235000377 dimer interface [polypeptide binding]; other site 439235000378 phosphorylation site [posttranslational modification] 439235000379 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 439235000380 ATP binding site [chemical binding]; other site 439235000381 Mg2+ binding site [ion binding]; other site 439235000382 G-X-G motif; other site 439235000383 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235000384 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 439235000385 active site 439235000386 phosphorylation site [posttranslational modification] 439235000387 intermolecular recognition site; other site 439235000388 dimerization interface [polypeptide binding]; other site 439235000389 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 439235000390 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 439235000391 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 439235000392 DNA binding residues [nucleotide binding] 439235000393 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 439235000394 AIR carboxylase; Region: AIRC; smart01001 439235000395 Predicted ATPases [General function prediction only]; Region: COG1106 439235000396 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235000397 Walker A/P-loop; other site 439235000398 ATP binding site [chemical binding]; other site 439235000399 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235000400 Walker B; other site 439235000401 D-loop; other site 439235000402 H-loop/switch region; other site 439235000403 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 439235000404 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 439235000405 Ligand binding site; other site 439235000406 oligomer interface; other site 439235000407 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 439235000408 GMP synthase; Reviewed; Region: guaA; PRK00074 439235000409 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 439235000410 AMP/PPi binding site [chemical binding]; other site 439235000411 candidate oxyanion hole; other site 439235000412 catalytic triad [active] 439235000413 potential glutamine specificity residues [chemical binding]; other site 439235000414 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 439235000415 ATP Binding subdomain [chemical binding]; other site 439235000416 Ligand Binding sites [chemical binding]; other site 439235000417 Dimerization subdomain; other site 439235000418 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 439235000419 phosphate binding site [ion binding]; other site 439235000420 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 439235000421 IHF dimer interface [polypeptide binding]; other site 439235000422 IHF - DNA interface [nucleotide binding]; other site 439235000423 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 439235000424 Ligand Binding Site [chemical binding]; other site 439235000425 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 439235000426 Ligand Binding Site [chemical binding]; other site 439235000427 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 439235000428 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 439235000429 substrate binding site [chemical binding]; other site 439235000430 oxyanion hole (OAH) forming residues; other site 439235000431 trimer interface [polypeptide binding]; other site 439235000432 Domain of unknown function (DUF362); Region: DUF362; pfam04015 439235000433 PAS domain S-box; Region: sensory_box; TIGR00229 439235000434 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 439235000435 putative active site [active] 439235000436 heme pocket [chemical binding]; other site 439235000437 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 439235000438 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 439235000439 TPR repeat; Region: TPR_11; pfam13414 439235000440 binding surface 439235000441 TPR motif; other site 439235000442 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 439235000443 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 439235000444 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 439235000445 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 439235000446 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 439235000447 active site 439235000448 substrate binding site [chemical binding]; other site 439235000449 metal binding site [ion binding]; metal-binding site 439235000450 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 439235000451 putative trimer interface [polypeptide binding]; other site 439235000452 putative CoA binding site [chemical binding]; other site 439235000453 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 439235000454 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 439235000455 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 439235000456 TPR motif; other site 439235000457 TPR repeat; Region: TPR_11; pfam13414 439235000458 binding surface 439235000459 TPR repeat; Region: TPR_11; pfam13414 439235000460 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 439235000461 binding surface 439235000462 TPR motif; other site 439235000463 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 439235000464 binding surface 439235000465 TPR motif; other site 439235000466 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 439235000467 TPR motif; other site 439235000468 binding surface 439235000469 TPR repeat; Region: TPR_11; pfam13414 439235000470 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 439235000471 binding surface 439235000472 TPR motif; other site 439235000473 Tetratricopeptide repeat; Region: TPR_16; pfam13432 439235000474 Tetratricopeptide repeat; Region: TPR_16; pfam13432 439235000475 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 439235000476 alternative sigma factor RpoH; Region: rpoH_proteo; TIGR02392 439235000477 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 439235000478 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 439235000479 DNA binding residues [nucleotide binding] 439235000480 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 439235000481 active site 439235000482 phosphorylation site [posttranslational modification] 439235000483 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 439235000484 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 439235000485 ATP binding site [chemical binding]; other site 439235000486 Mg++ binding site [ion binding]; other site 439235000487 motif III; other site 439235000488 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 439235000489 nucleotide binding region [chemical binding]; other site 439235000490 ATP-binding site [chemical binding]; other site 439235000491 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 439235000492 RNA binding site [nucleotide binding]; other site 439235000493 Uncharacterized conserved protein (DUF2196); Region: DUF2196; pfam09962 439235000494 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 439235000495 S-adenosylmethionine binding site [chemical binding]; other site 439235000496 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 439235000497 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 439235000498 Predicted amidohydrolase [General function prediction only]; Region: COG0388 439235000499 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 439235000500 active site 439235000501 catalytic triad [active] 439235000502 dimer interface [polypeptide binding]; other site 439235000503 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 439235000504 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 439235000505 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 439235000506 GAF domain; Region: GAF_2; pfam13185 439235000507 GAF domain; Region: GAF_3; pfam13492 439235000508 PAS domain S-box; Region: sensory_box; TIGR00229 439235000509 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 439235000510 putative active site [active] 439235000511 heme pocket [chemical binding]; other site 439235000512 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 439235000513 PAS fold; Region: PAS_3; pfam08447 439235000514 putative active site [active] 439235000515 heme pocket [chemical binding]; other site 439235000516 PAS domain S-box; Region: sensory_box; TIGR00229 439235000517 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235000518 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 439235000519 dimer interface [polypeptide binding]; other site 439235000520 phosphorylation site [posttranslational modification] 439235000521 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 439235000522 ATP binding site [chemical binding]; other site 439235000523 Mg2+ binding site [ion binding]; other site 439235000524 G-X-G motif; other site 439235000525 Response regulator receiver domain; Region: Response_reg; pfam00072 439235000526 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 439235000527 active site 439235000528 phosphorylation site [posttranslational modification] 439235000529 intermolecular recognition site; other site 439235000530 dimerization interface [polypeptide binding]; other site 439235000531 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 439235000532 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 439235000533 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 439235000534 Predicted transcriptional regulators [Transcription]; Region: COG1733 439235000535 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 439235000536 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 439235000537 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 439235000538 substrate binding site [chemical binding]; other site 439235000539 oxyanion hole (OAH) forming residues; other site 439235000540 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 439235000541 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 439235000542 CoenzymeA binding site [chemical binding]; other site 439235000543 subunit interaction site [polypeptide binding]; other site 439235000544 PHB binding site; other site 439235000545 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 439235000546 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 439235000547 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 439235000548 tyrosine decarboxylase MnfA; Region: tyr_de_CO2_Arch; TIGR03812 439235000549 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 439235000550 catalytic residue [active] 439235000551 Fic/DOC family; Region: Fic; pfam02661 439235000552 Fic family protein [Function unknown]; Region: COG3177 439235000553 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 439235000554 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 439235000555 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 439235000556 putative MPT binding site; other site 439235000557 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 439235000558 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 439235000559 molybdopterin cofactor binding site; other site 439235000560 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 439235000561 molybdopterin cofactor binding site; other site 439235000562 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235000563 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235000564 Tic20-like protein; Region: Tic20; pfam09685 439235000565 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 439235000566 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235000567 putative active site [active] 439235000568 heme pocket [chemical binding]; other site 439235000569 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235000570 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 439235000571 putative active site [active] 439235000572 heme pocket [chemical binding]; other site 439235000573 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 439235000574 dimer interface [polypeptide binding]; other site 439235000575 phosphorylation site [posttranslational modification] 439235000576 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 439235000577 ATP binding site [chemical binding]; other site 439235000578 Mg2+ binding site [ion binding]; other site 439235000579 G-X-G motif; other site 439235000580 Response regulator receiver domain; Region: Response_reg; pfam00072 439235000581 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 439235000582 active site 439235000583 phosphorylation site [posttranslational modification] 439235000584 intermolecular recognition site; other site 439235000585 dimerization interface [polypeptide binding]; other site 439235000586 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 439235000587 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 439235000588 4Fe-4S binding domain; Region: Fer4; pfam00037 439235000589 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 439235000590 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 439235000591 Response regulator receiver domain; Region: Response_reg; pfam00072 439235000592 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 439235000593 active site 439235000594 phosphorylation site [posttranslational modification] 439235000595 intermolecular recognition site; other site 439235000596 dimerization interface [polypeptide binding]; other site 439235000597 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 439235000598 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 439235000599 conserved cys residue [active] 439235000600 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439235000601 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439235000602 4Fe-4S binding domain; Region: Fer4; pfam00037 439235000603 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235000604 4Fe-4S binding domain; Region: Fer4; pfam00037 439235000605 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 439235000606 CoenzymeA binding site [chemical binding]; other site 439235000607 subunit interaction site [polypeptide binding]; other site 439235000608 PHB binding site; other site 439235000609 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 439235000610 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439235000611 ligand binding site [chemical binding]; other site 439235000612 flexible hinge region; other site 439235000613 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 439235000614 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 439235000615 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439235000616 Coenzyme A binding pocket [chemical binding]; other site 439235000617 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 439235000618 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439235000619 putative substrate translocation pore; other site 439235000620 adenosine deaminase; Provisional; Region: PRK09358 439235000621 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 439235000622 active site 439235000623 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 439235000624 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 439235000625 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235000626 homodimer interface [polypeptide binding]; other site 439235000627 catalytic residue [active] 439235000628 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 439235000629 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235000630 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 439235000631 putative FMN binding site [chemical binding]; other site 439235000632 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 439235000633 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 439235000634 substrate binding site [chemical binding]; other site 439235000635 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 439235000636 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 439235000637 substrate binding site [chemical binding]; other site 439235000638 ligand binding site [chemical binding]; other site 439235000639 GTP-binding protein LepA; Provisional; Region: PRK05433 439235000640 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 439235000641 G1 box; other site 439235000642 putative GEF interaction site [polypeptide binding]; other site 439235000643 GTP/Mg2+ binding site [chemical binding]; other site 439235000644 Switch I region; other site 439235000645 G2 box; other site 439235000646 G3 box; other site 439235000647 Switch II region; other site 439235000648 G4 box; other site 439235000649 G5 box; other site 439235000650 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 439235000651 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 439235000652 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 439235000653 Peptidase_C39 like family; Region: DUF3335; pfam11814 439235000654 SprA-related family; Region: SprA-related; pfam12118 439235000655 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 439235000656 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 439235000657 PAS domain; Region: PAS_9; pfam13426 439235000658 putative active site [active] 439235000659 heme pocket [chemical binding]; other site 439235000660 PAS domain S-box; Region: sensory_box; TIGR00229 439235000661 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 439235000662 putative active site [active] 439235000663 heme pocket [chemical binding]; other site 439235000664 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 439235000665 PAS domain; Region: PAS_9; pfam13426 439235000666 putative active site [active] 439235000667 heme pocket [chemical binding]; other site 439235000668 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235000669 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 439235000670 putative active site [active] 439235000671 heme pocket [chemical binding]; other site 439235000672 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 439235000673 dimer interface [polypeptide binding]; other site 439235000674 phosphorylation site [posttranslational modification] 439235000675 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 439235000676 ATP binding site [chemical binding]; other site 439235000677 G-X-G motif; other site 439235000678 Uncharacterized conserved protein [Function unknown]; Region: COG3379 439235000679 Uncharacterized conserved protein [Function unknown]; Region: COG3379 439235000680 Uncharacterized conserved protein [Function unknown]; Region: COG3379 439235000681 Uncharacterized conserved protein [Function unknown]; Region: COG3379 439235000682 Sulfatase; Region: Sulfatase; pfam00884 439235000683 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 439235000684 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 439235000685 Tetratricopeptide repeat; Region: TPR_16; pfam13432 439235000686 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 439235000687 TPR motif; other site 439235000688 binding surface 439235000689 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235000690 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 439235000691 HEAT repeats; Region: HEAT_2; pfam13646 439235000692 HAMP domain; Region: HAMP; pfam00672 439235000693 PAS domain; Region: PAS; smart00091 439235000694 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235000695 putative active site [active] 439235000696 heme pocket [chemical binding]; other site 439235000697 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 439235000698 dimer interface [polypeptide binding]; other site 439235000699 phosphorylation site [posttranslational modification] 439235000700 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 439235000701 ATP binding site [chemical binding]; other site 439235000702 Mg2+ binding site [ion binding]; other site 439235000703 G-X-G motif; other site 439235000704 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 439235000705 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 439235000706 substrate binding pocket [chemical binding]; other site 439235000707 membrane-bound complex binding site; other site 439235000708 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 439235000709 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 439235000710 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 439235000711 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 439235000712 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 439235000713 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 439235000714 active site residue [active] 439235000715 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 439235000716 Transposase; Region: DEDD_Tnp_IS110; pfam01548 439235000717 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 439235000718 GTPase RsgA; Reviewed; Region: PRK01889 439235000719 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 439235000720 RNA binding site [nucleotide binding]; other site 439235000721 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 439235000722 GTPase/Zn-binding domain interface [polypeptide binding]; other site 439235000723 GTP/Mg2+ binding site [chemical binding]; other site 439235000724 G4 box; other site 439235000725 G5 box; other site 439235000726 G1 box; other site 439235000727 Switch I region; other site 439235000728 G2 box; other site 439235000729 G3 box; other site 439235000730 Switch II region; other site 439235000731 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 439235000732 catalytic motif [active] 439235000733 Zn binding site [ion binding]; other site 439235000734 adenylate kinase; Provisional; Region: PRK14529 439235000735 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 439235000736 AMP-binding site [chemical binding]; other site 439235000737 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 439235000738 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 439235000739 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 439235000740 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 439235000741 Protein of unknown function (DUF3187); Region: DUF3187; pfam11383 439235000742 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 439235000743 GAF domain; Region: GAF; pfam01590 439235000744 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 439235000745 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 439235000746 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 439235000747 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 439235000748 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 439235000749 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 439235000750 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235000751 active site 439235000752 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 439235000753 short chain dehydrogenase; Provisional; Region: PRK05650 439235000754 classical (c) SDRs; Region: SDR_c; cd05233 439235000755 NAD(P) binding site [chemical binding]; other site 439235000756 active site 439235000757 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 439235000758 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 439235000759 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 439235000760 Acylphosphatases [Energy production and conversion]; Region: AcyP; COG1254 439235000761 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 439235000762 catalytic site [active] 439235000763 putative active site [active] 439235000764 putative substrate binding site [chemical binding]; other site 439235000765 dimer interface [polypeptide binding]; other site 439235000766 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]; Region: COG1916 439235000767 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235000768 4Fe-4S binding domain; Region: Fer4; pfam00037 439235000769 putative oxidoreductase; Provisional; Region: PRK12831 439235000770 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439235000771 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 439235000772 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439235000773 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 439235000774 ligand binding site [chemical binding]; other site 439235000775 flexible hinge region; other site 439235000776 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 439235000777 Catalytic domain of Protein Kinases; Region: PKc; cd00180 439235000778 active site 439235000779 ATP binding site [chemical binding]; other site 439235000780 substrate binding site [chemical binding]; other site 439235000781 activation loop (A-loop); other site 439235000782 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 439235000783 active site 439235000784 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 439235000785 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 439235000786 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 439235000787 heterodimer interface [polypeptide binding]; other site 439235000788 substrate interaction site [chemical binding]; other site 439235000789 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 439235000790 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 439235000791 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 439235000792 active site 439235000793 substrate binding site [chemical binding]; other site 439235000794 coenzyme B12 binding site [chemical binding]; other site 439235000795 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 439235000796 B12 binding site [chemical binding]; other site 439235000797 cobalt ligand [ion binding]; other site 439235000798 membrane ATPase/protein kinase; Provisional; Region: PRK09435 439235000799 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 439235000800 Walker A; other site 439235000801 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 439235000802 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 439235000803 putative [Fe4-S4] binding site [ion binding]; other site 439235000804 putative molybdopterin cofactor binding site [chemical binding]; other site 439235000805 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 439235000806 molybdopterin cofactor binding site; other site 439235000807 Trm112p-like protein; Region: Trm112p; pfam03966 439235000808 Methyltransferase domain; Region: Methyltransf_31; pfam13847 439235000809 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 439235000810 S-adenosylmethionine binding site [chemical binding]; other site 439235000811 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 439235000812 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439235000813 putative substrate translocation pore; other site 439235000814 thioredoxin 2; Provisional; Region: PRK10996 439235000815 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 439235000816 catalytic residues [active] 439235000817 mechanosensitive channel MscS; Provisional; Region: PRK10334 439235000818 Conserved TM helix; Region: TM_helix; pfam05552 439235000819 Mechanosensitive ion channel; Region: MS_channel; pfam00924 439235000820 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 439235000821 metal ion-dependent adhesion site (MIDAS); other site 439235000822 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 439235000823 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 439235000824 ligand binding site [chemical binding]; other site 439235000825 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 439235000826 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 439235000827 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 439235000828 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 439235000829 B12 binding site [chemical binding]; other site 439235000830 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 439235000831 Radical SAM superfamily; Region: Radical_SAM; pfam04055 439235000832 FeS/SAM binding site; other site 439235000833 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 439235000834 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 439235000835 Cysteine-rich domain; Region: CCG; pfam02754 439235000836 Cysteine-rich domain; Region: CCG; pfam02754 439235000837 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 439235000838 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 439235000839 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 439235000840 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 439235000841 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439235000842 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 439235000843 ligand binding site [chemical binding]; other site 439235000844 flexible hinge region; other site 439235000845 Phosphoglycerate kinase; Region: PGK; pfam00162 439235000846 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cl00198 439235000847 substrate binding site [chemical binding]; other site 439235000848 ADP binding site [chemical binding]; other site 439235000849 catalytic site [active] 439235000850 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 439235000851 4Fe-4S binding domain; Region: Fer4; pfam00037 439235000852 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235000853 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 439235000854 Oligosaccharyltransferase 48 kDa subunit beta; Region: DDOST_48kD; pfam03345 439235000855 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 439235000856 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235000857 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 439235000858 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 439235000859 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 439235000860 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 439235000861 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 439235000862 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 439235000863 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 439235000864 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 439235000865 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 439235000866 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 439235000867 Acetoacetate decarboxylase (ADC); Region: ADC; pfam06314 439235000868 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08293 439235000869 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 439235000870 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 439235000871 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 439235000872 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 439235000873 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 439235000874 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 439235000875 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; smart00790 439235000876 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 439235000877 ThiS family; Region: ThiS; pfam02597 439235000878 charged pocket; other site 439235000879 hydrophobic patch; other site 439235000880 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 439235000881 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 439235000882 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439235000883 NAD(P) binding site [chemical binding]; other site 439235000884 active site 439235000885 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 439235000886 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 439235000887 DNA binding residues [nucleotide binding] 439235000888 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 439235000889 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 439235000890 dimer interface [polypeptide binding]; other site 439235000891 conserved gate region; other site 439235000892 putative PBP binding loops; other site 439235000893 ABC-ATPase subunit interface; other site 439235000894 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 439235000895 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 439235000896 dimer interface [polypeptide binding]; other site 439235000897 conserved gate region; other site 439235000898 ABC-ATPase subunit interface; other site 439235000899 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 439235000900 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439235000901 Walker A/P-loop; other site 439235000902 ATP binding site [chemical binding]; other site 439235000903 Q-loop/lid; other site 439235000904 ABC transporter signature motif; other site 439235000905 Walker B; other site 439235000906 D-loop; other site 439235000907 H-loop/switch region; other site 439235000908 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 439235000909 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 439235000910 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439235000911 Walker A/P-loop; other site 439235000912 ATP binding site [chemical binding]; other site 439235000913 Q-loop/lid; other site 439235000914 ABC transporter signature motif; other site 439235000915 Walker B; other site 439235000916 D-loop; other site 439235000917 H-loop/switch region; other site 439235000918 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 439235000919 hypothetical protein; Provisional; Region: PRK06921 439235000920 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; pfam08273 439235000921 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 439235000922 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cd00188 439235000923 active site 439235000924 metal binding site [ion binding]; metal-binding site 439235000925 Transposase [DNA replication, recombination, and repair]; Region: COG5421 439235000926 Transcription initiation factor IIE, alpha subunit [Transcription]; Region: TFA1; COG1675 439235000927 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 439235000928 DNA polymerase III subunit beta; Validated; Region: PRK05643 439235000929 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 439235000930 putative DNA binding surface [nucleotide binding]; other site 439235000931 dimer interface [polypeptide binding]; other site 439235000932 beta-clamp/clamp loader binding surface; other site 439235000933 beta-clamp/translesion DNA polymerase binding surface; other site 439235000934 ParB-like nuclease domain; Region: ParBc; pfam02195 439235000935 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 439235000936 Helix-turn-helix domain; Region: HTH_17; pfam12728 439235000937 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 439235000938 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 439235000939 active site 439235000940 DNA binding site [nucleotide binding] 439235000941 Int/Topo IB signature motif; other site 439235000942 FOG: CBS domain [General function prediction only]; Region: COG0517 439235000943 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 439235000944 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 439235000945 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 439235000946 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 439235000947 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 439235000948 Transposase; Region: DEDD_Tnp_IS110; pfam01548 439235000949 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 439235000950 Flagellin N-methylase; Region: FliB; cl00497 439235000951 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 439235000952 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235000953 Zn2+ binding site [ion binding]; other site 439235000954 Mg2+ binding site [ion binding]; other site 439235000955 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 439235000956 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 439235000957 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 439235000958 S-adenosylmethionine binding site [chemical binding]; other site 439235000959 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 439235000960 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 439235000961 NMT1-like family; Region: NMT1_2; pfam13379 439235000962 substrate binding pocket [chemical binding]; other site 439235000963 membrane-bound complex binding site; other site 439235000964 hinge residues; other site 439235000965 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 439235000966 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 439235000967 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235000968 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 439235000969 active site 439235000970 phosphorylation site [posttranslational modification] 439235000971 intermolecular recognition site; other site 439235000972 dimerization interface [polypeptide binding]; other site 439235000973 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 439235000974 NMT1-like family; Region: NMT1_2; pfam13379 439235000975 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 439235000976 putative CheA interaction surface; other site 439235000977 PAS fold; Region: PAS_4; pfam08448 439235000978 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 439235000979 putative active site [active] 439235000980 heme pocket [chemical binding]; other site 439235000981 PAS fold; Region: PAS_3; pfam08447 439235000982 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 439235000983 putative active site [active] 439235000984 heme pocket [chemical binding]; other site 439235000985 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 439235000986 dimer interface [polypeptide binding]; other site 439235000987 phosphorylation site [posttranslational modification] 439235000988 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 439235000989 ATP binding site [chemical binding]; other site 439235000990 Mg2+ binding site [ion binding]; other site 439235000991 G-X-G motif; other site 439235000992 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235000993 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 439235000994 active site 439235000995 phosphorylation site [posttranslational modification] 439235000996 intermolecular recognition site; other site 439235000997 dimerization interface [polypeptide binding]; other site 439235000998 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 439235000999 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_family; cd02803 439235001000 active site 439235001001 FMN binding site [chemical binding]; other site 439235001002 substrate binding site [chemical binding]; other site 439235001003 putative catalytic residue [active] 439235001004 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439235001005 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 439235001006 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 439235001007 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 439235001008 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 439235001009 Response regulator receiver domain; Region: Response_reg; pfam00072 439235001010 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 439235001011 active site 439235001012 phosphorylation site [posttranslational modification] 439235001013 intermolecular recognition site; other site 439235001014 dimerization interface [polypeptide binding]; other site 439235001015 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 439235001016 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 439235001017 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 439235001018 Walker A motif; other site 439235001019 ATP binding site [chemical binding]; other site 439235001020 Walker B motif; other site 439235001021 Double zinc ribbon; Region: DZR; pfam12773 439235001022 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 439235001023 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 439235001024 dimer interface [polypeptide binding]; other site 439235001025 phosphorylation site [posttranslational modification] 439235001026 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 439235001027 ATP binding site [chemical binding]; other site 439235001028 Mg2+ binding site [ion binding]; other site 439235001029 G-X-G motif; other site 439235001030 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 439235001031 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 439235001032 G1 box; other site 439235001033 GTP/Mg2+ binding site [chemical binding]; other site 439235001034 G2 box; other site 439235001035 Switch I region; other site 439235001036 G3 box; other site 439235001037 Switch II region; other site 439235001038 G4 box; other site 439235001039 G5 box; other site 439235001040 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 439235001041 Cysteine-rich domain; Region: CCG; pfam02754 439235001042 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 439235001043 MG2 domain; Region: A2M_N; pfam01835 439235001044 Alpha-2-macroglobulin family; Region: A2M; pfam00207 439235001045 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 439235001046 surface patch; other site 439235001047 thioester region; other site 439235001048 penicillin-binding protein 1C; Provisional; Region: PRK11240 439235001049 Transglycosylase; Region: Transgly; pfam00912 439235001050 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 439235001051 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 439235001052 Response regulator receiver domain; Region: Response_reg; pfam00072 439235001053 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 439235001054 active site 439235001055 phosphorylation site [posttranslational modification] 439235001056 intermolecular recognition site; other site 439235001057 dimerization interface [polypeptide binding]; other site 439235001058 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 439235001059 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 439235001060 Response regulator receiver domain; Region: Response_reg; pfam00072 439235001061 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 439235001062 active site 439235001063 phosphorylation site [posttranslational modification] 439235001064 intermolecular recognition site; other site 439235001065 dimerization interface [polypeptide binding]; other site 439235001066 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 439235001067 metal ion-dependent adhesion site (MIDAS); other site 439235001068 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 439235001069 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 439235001070 ligand binding site [chemical binding]; other site 439235001071 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 439235001072 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 439235001073 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235001074 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 439235001075 dimer interface [polypeptide binding]; other site 439235001076 phosphorylation site [posttranslational modification] 439235001077 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 439235001078 ATP binding site [chemical binding]; other site 439235001079 Mg2+ binding site [ion binding]; other site 439235001080 G-X-G motif; other site 439235001081 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 439235001082 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 439235001083 putative active site [active] 439235001084 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 439235001085 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 439235001086 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 439235001087 active site 439235001088 phosphorylation site [posttranslational modification] 439235001089 intermolecular recognition site; other site 439235001090 dimerization interface [polypeptide binding]; other site 439235001091 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 439235001092 DNA binding site [nucleotide binding] 439235001093 von Willebrand factor; Region: vWF_A; pfam12450 439235001094 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 439235001095 VWA subgroup: 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...; Region: vWA_subgroup; cd01465 439235001096 metal ion-dependent adhesion site (MIDAS); other site 439235001097 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 439235001098 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 439235001099 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 439235001100 metal ion-dependent adhesion site (MIDAS); other site 439235001101 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 439235001102 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 439235001103 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 439235001104 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439235001105 ligand binding site [chemical binding]; other site 439235001106 flexible hinge region; other site 439235001107 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; cl00047 439235001108 Response regulator receiver domain; Region: Response_reg; pfam00072 439235001109 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 439235001110 active site 439235001111 phosphorylation site [posttranslational modification] 439235001112 intermolecular recognition site; other site 439235001113 dimerization interface [polypeptide binding]; other site 439235001114 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 439235001115 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 439235001116 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 439235001117 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 439235001118 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 439235001119 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 439235001120 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 439235001121 Walker A/P-loop; other site 439235001122 ATP binding site [chemical binding]; other site 439235001123 Q-loop/lid; other site 439235001124 ABC transporter signature motif; other site 439235001125 Walker B; other site 439235001126 D-loop; other site 439235001127 H-loop/switch region; other site 439235001128 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 439235001129 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235001130 Zn2+ binding site [ion binding]; other site 439235001131 Mg2+ binding site [ion binding]; other site 439235001132 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 439235001133 iron-sulfur cluster [ion binding]; other site 439235001134 [2Fe-2S] cluster binding site [ion binding]; other site 439235001135 TfoX C-terminal domain; Region: TfoX_C; pfam04994 439235001136 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 439235001137 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235001138 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 439235001139 putative active site [active] 439235001140 heme pocket [chemical binding]; other site 439235001141 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 439235001142 dimer interface [polypeptide binding]; other site 439235001143 phosphorylation site [posttranslational modification] 439235001144 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 439235001145 ATP binding site [chemical binding]; other site 439235001146 G-X-G motif; other site 439235001147 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 439235001148 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 439235001149 active site 439235001150 phosphorylation site [posttranslational modification] 439235001151 intermolecular recognition site; other site 439235001152 dimerization interface [polypeptide binding]; other site 439235001153 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 439235001154 Walker A motif; other site 439235001155 ATP binding site [chemical binding]; other site 439235001156 Walker B motif; other site 439235001157 arginine finger; other site 439235001158 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235001159 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; cd00688 439235001160 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 439235001161 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 439235001162 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 439235001163 N-terminal plug; other site 439235001164 ligand-binding site [chemical binding]; other site 439235001165 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 439235001166 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; cd00688 439235001167 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 439235001168 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235001169 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 439235001170 binding surface 439235001171 TPR motif; other site 439235001172 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235001173 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 439235001174 binding surface 439235001175 TPR motif; other site 439235001176 Predicted permeases [General function prediction only]; Region: COG0795 439235001177 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 439235001178 Predicted permeases [General function prediction only]; Region: COG0795 439235001179 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 439235001180 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 439235001181 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 439235001182 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 439235001183 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 439235001184 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 439235001185 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 439235001186 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 439235001187 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 439235001188 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439235001189 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 439235001190 putative ADP-binding pocket [chemical binding]; other site 439235001191 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 439235001192 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 439235001193 putative active site [active] 439235001194 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 439235001195 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439235001196 O-Antigen ligase; Region: Wzy_C; pfam04932 439235001197 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 439235001198 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 439235001199 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 439235001200 putative acyl-acceptor binding pocket; other site 439235001201 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 439235001202 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 439235001203 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 439235001204 putative active site [active] 439235001205 Uncharacterized conserved protein [Function unknown]; Region: COG2835 439235001206 Domain of unknown function (DUF4416); Region: DUF4416; pfam14385 439235001207 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 439235001208 CoA binding domain; Region: CoA_binding_2; pfam13380 439235001209 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 439235001210 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 439235001211 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235001212 Tetratricopeptide repeat; Region: TPR_10; pfam13374 439235001213 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235001214 Tetratricopeptide repeat; Region: TPR_10; pfam13374 439235001215 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 439235001216 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 439235001217 Surface antigen; Region: Bac_surface_Ag; pfam01103 439235001218 haemagglutination activity domain; Region: Haemagg_act; cl05436 439235001219 HEAT repeats; Region: HEAT_2; pfam13646 439235001220 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 439235001221 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439235001222 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 439235001223 ligand binding site [chemical binding]; other site 439235001224 flexible hinge region; other site 439235001225 HTH domain; Region: HTH_11; pfam08279 439235001226 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 439235001227 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 439235001228 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 439235001229 BioY family; Region: BioY; pfam02632 439235001230 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 439235001231 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 439235001232 Walker A/P-loop; other site 439235001233 ATP binding site [chemical binding]; other site 439235001234 Q-loop/lid; other site 439235001235 ABC transporter signature motif; other site 439235001236 Walker B; other site 439235001237 D-loop; other site 439235001238 H-loop/switch region; other site 439235001239 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 439235001240 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 439235001241 TrkA-N domain; Region: TrkA_N; pfam02254 439235001242 TrkA-C domain; Region: TrkA_C; pfam02080 439235001243 TrkA-N domain; Region: TrkA_N; pfam02254 439235001244 TrkA-C domain; Region: TrkA_C; pfam02080 439235001245 Cation transport protein; Region: TrkH; cl17365 439235001246 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 439235001247 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 439235001248 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439235001249 NAD(P) binding site [chemical binding]; other site 439235001250 active site 439235001251 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 439235001252 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 439235001253 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439235001254 4Fe-4S binding domain; Region: Fer4; pfam00037 439235001255 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 439235001256 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 439235001257 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 439235001258 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 439235001259 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 439235001260 FMN binding site [chemical binding]; other site 439235001261 active site 439235001262 catalytic residues [active] 439235001263 substrate binding site [chemical binding]; other site 439235001264 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 439235001265 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 439235001266 homodimer interface [polypeptide binding]; other site 439235001267 substrate-cofactor binding pocket; other site 439235001268 catalytic residue [active] 439235001269 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 439235001270 active site 439235001271 multimer interface [polypeptide binding]; other site 439235001272 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 439235001273 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 439235001274 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 439235001275 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 439235001276 Tetratricopeptide repeat; Region: TPR_16; pfam13432 439235001277 TPR motif; other site 439235001278 binding surface 439235001279 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 439235001280 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 439235001281 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 439235001282 catalytic residue [active] 439235001283 Maf-like protein; Region: Maf; pfam02545 439235001284 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 439235001285 active site 439235001286 dimer interface [polypeptide binding]; other site 439235001287 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 439235001288 Carbon starvation protein CstA; Region: CstA; pfam02554 439235001289 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 439235001290 Uncharacterized conserved protein [Function unknown]; Region: COG1624 439235001291 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 439235001292 Domain of unknown function DUF87; Region: DUF87; pfam01935 439235001293 HerA helicase [Replication, recombination, and repair]; Region: COG0433 439235001294 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 439235001295 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 439235001296 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 439235001297 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 439235001298 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 439235001299 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 439235001300 active site 439235001301 Int/Topo IB signature motif; other site 439235001302 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 439235001303 active site 439235001304 HslU subunit interaction site [polypeptide binding]; other site 439235001305 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 439235001306 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 439235001307 Walker A motif; other site 439235001308 ATP binding site [chemical binding]; other site 439235001309 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 439235001310 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 439235001311 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 439235001312 feedback inhibition sensing region; other site 439235001313 homohexameric interface [polypeptide binding]; other site 439235001314 nucleotide binding site [chemical binding]; other site 439235001315 N-acetyl-L-glutamate binding site [chemical binding]; other site 439235001316 acetylornithine aminotransferase; Provisional; Region: PRK02627 439235001317 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 439235001318 inhibitor-cofactor binding pocket; inhibition site 439235001319 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235001320 catalytic residue [active] 439235001321 ornithine carbamoyltransferase; Provisional; Region: PRK00779 439235001322 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 439235001323 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 439235001324 argininosuccinate synthase; Provisional; Region: PRK13820 439235001325 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 439235001326 ANP binding site [chemical binding]; other site 439235001327 Substrate Binding Site II [chemical binding]; other site 439235001328 Substrate Binding Site I [chemical binding]; other site 439235001329 argininosuccinate lyase; Provisional; Region: PRK00855 439235001330 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 439235001331 active sites [active] 439235001332 tetramer interface [polypeptide binding]; other site 439235001333 diaminopimelate decarboxylase; Region: lysA; TIGR01048 439235001334 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 439235001335 active site 439235001336 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 439235001337 substrate binding site [chemical binding]; other site 439235001338 catalytic residues [active] 439235001339 dimer interface [polypeptide binding]; other site 439235001340 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 439235001341 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 439235001342 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 439235001343 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 439235001344 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 439235001345 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235001346 homodimer interface [polypeptide binding]; other site 439235001347 catalytic residue [active] 439235001348 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 439235001349 catalytic center binding site [active] 439235001350 ATP binding site [chemical binding]; other site 439235001351 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 439235001352 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 439235001353 active site 439235001354 intersubunit interactions; other site 439235001355 catalytic residue [active] 439235001356 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 439235001357 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 439235001358 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235001359 WHG domain; Region: WHG; pfam13305 439235001360 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 439235001361 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), TaA; Region: NGN_SP_TaA; cd09893 439235001362 transcriptional activator RfaH; Region: RfaH; TIGR01955 439235001363 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 439235001364 heterodimer interface [polypeptide binding]; other site 439235001365 homodimer interface [polypeptide binding]; other site 439235001366 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 439235001367 binding surface 439235001368 TPR motif; other site 439235001369 TPR repeat; Region: TPR_11; pfam13414 439235001370 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 439235001371 binding surface 439235001372 TPR motif; other site 439235001373 TPR repeat; Region: TPR_11; pfam13414 439235001374 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 439235001375 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 439235001376 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 439235001377 Chain length determinant protein; Region: Wzz; pfam02706 439235001378 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 439235001379 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 439235001380 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 439235001381 SLBB domain; Region: SLBB; pfam10531 439235001382 SLBB domain; Region: SLBB; pfam10531 439235001383 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 439235001384 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 439235001385 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 439235001386 Zn binding site [ion binding]; other site 439235001387 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 439235001388 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 439235001389 dimerization interface [polypeptide binding]; other site 439235001390 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 439235001391 SurA N-terminal domain; Region: SurA_N_3; cl07813 439235001392 Response regulator receiver domain; Region: Response_reg; pfam00072 439235001393 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 439235001394 active site 439235001395 phosphorylation site [posttranslational modification] 439235001396 intermolecular recognition site; other site 439235001397 dimerization interface [polypeptide binding]; other site 439235001398 Response regulator receiver domain; Region: Response_reg; pfam00072 439235001399 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 439235001400 active site 439235001401 phosphorylation site [posttranslational modification] 439235001402 intermolecular recognition site; other site 439235001403 dimerization interface [polypeptide binding]; other site 439235001404 Isochorismatase family; Region: Isochorismatase; pfam00857 439235001405 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; cd00431 439235001406 catalytic triad [active] 439235001407 conserved cis-peptide bond; other site 439235001408 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 439235001409 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 439235001410 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 439235001411 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 439235001412 active site 439235001413 C-terminal domain interface [polypeptide binding]; other site 439235001414 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 439235001415 active site 439235001416 N-terminal domain interface [polypeptide binding]; other site 439235001417 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 439235001418 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 439235001419 ABC-ATPase subunit interface; other site 439235001420 dimer interface [polypeptide binding]; other site 439235001421 putative PBP binding regions; other site 439235001422 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 439235001423 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 439235001424 Walker A/P-loop; other site 439235001425 ATP binding site [chemical binding]; other site 439235001426 Q-loop/lid; other site 439235001427 ABC transporter signature motif; other site 439235001428 Walker B; other site 439235001429 D-loop; other site 439235001430 H-loop/switch region; other site 439235001431 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 439235001432 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 439235001433 intersubunit interface [polypeptide binding]; other site 439235001434 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 439235001435 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 439235001436 catalytic triad [active] 439235001437 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 439235001438 Precorrin-8X methylmutase; Region: CbiC; pfam02570 439235001439 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 439235001440 active site 439235001441 SAM binding site [chemical binding]; other site 439235001442 homodimer interface [polypeptide binding]; other site 439235001443 Nucleoside recognition; Region: Gate; pfam07670 439235001444 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 439235001445 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 439235001446 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 439235001447 active site 439235001448 putative homodimer interface [polypeptide binding]; other site 439235001449 SAM binding site [chemical binding]; other site 439235001450 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 439235001451 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 439235001452 S-adenosylmethionine binding site [chemical binding]; other site 439235001453 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 439235001454 active site 439235001455 SAM binding site [chemical binding]; other site 439235001456 homodimer interface [polypeptide binding]; other site 439235001457 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 439235001458 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 439235001459 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 439235001460 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 439235001461 active site 439235001462 SAM binding site [chemical binding]; other site 439235001463 homodimer interface [polypeptide binding]; other site 439235001464 cobyric acid synthase; Provisional; Region: PRK00784 439235001465 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 439235001466 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 439235001467 catalytic triad [active] 439235001468 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 439235001469 homotrimer interface [polypeptide binding]; other site 439235001470 Walker A motif; other site 439235001471 GTP binding site [chemical binding]; other site 439235001472 Walker B motif; other site 439235001473 cobalamin synthase; Reviewed; Region: cobS; PRK00235 439235001474 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 439235001475 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 439235001476 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235001477 homodimer interface [polypeptide binding]; other site 439235001478 catalytic residue [active] 439235001479 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 439235001480 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 439235001481 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 439235001482 putative dimer interface [polypeptide binding]; other site 439235001483 active site pocket [active] 439235001484 putative cataytic base [active] 439235001485 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 439235001486 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 439235001487 Metal-binding active site; metal-binding site 439235001488 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 439235001489 active site residue [active] 439235001490 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 439235001491 active site residue [active] 439235001492 HAMP domain; Region: HAMP; pfam00672 439235001493 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 439235001494 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 439235001495 dimer interface [polypeptide binding]; other site 439235001496 phosphorylation site [posttranslational modification] 439235001497 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 439235001498 ATP binding site [chemical binding]; other site 439235001499 Mg2+ binding site [ion binding]; other site 439235001500 G-X-G motif; other site 439235001501 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235001502 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 439235001503 active site 439235001504 phosphorylation site [posttranslational modification] 439235001505 intermolecular recognition site; other site 439235001506 dimerization interface [polypeptide binding]; other site 439235001507 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 439235001508 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 439235001509 dimerization interface [polypeptide binding]; other site 439235001510 putative ATP binding site [chemical binding]; other site 439235001511 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 439235001512 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 439235001513 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 439235001514 nucleoside/Zn binding site; other site 439235001515 dimer interface [polypeptide binding]; other site 439235001516 catalytic motif [active] 439235001517 DctM-like transporters; Region: DctM; pfam06808 439235001518 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 439235001519 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 439235001520 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 439235001521 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 439235001522 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 439235001523 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 439235001524 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 439235001525 dimerization interface [polypeptide binding]; other site 439235001526 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 439235001527 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 439235001528 dimer interface [polypeptide binding]; other site 439235001529 putative CheW interface [polypeptide binding]; other site 439235001530 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 439235001531 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 439235001532 NAD binding site [chemical binding]; other site 439235001533 substrate binding site [chemical binding]; other site 439235001534 homodimer interface [polypeptide binding]; other site 439235001535 active site 439235001536 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 439235001537 non-specific DNA binding site [nucleotide binding]; other site 439235001538 salt bridge; other site 439235001539 sequence-specific DNA binding site [nucleotide binding]; other site 439235001540 Cell division protein FtsA; Region: FtsA; cl17206 439235001541 Competence protein A; Region: Competence_A; pfam11104 439235001542 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 439235001543 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 439235001544 Pilus assembly protein, PilO; Region: PilO; cl01234 439235001545 Pilus assembly protein, PilP; Region: PilP; pfam04351 439235001546 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 439235001547 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 439235001548 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 439235001549 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 439235001550 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 439235001551 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 439235001552 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 439235001553 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 439235001554 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 439235001555 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 439235001556 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 439235001557 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 439235001558 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 439235001559 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 439235001560 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 439235001561 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 439235001562 hypothetical protein; Reviewed; Region: PRK00024 439235001563 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 439235001564 MPN+ (JAMM) motif; other site 439235001565 Zinc-binding site [ion binding]; other site 439235001566 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 439235001567 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 439235001568 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 439235001569 DNA gyrase subunit A; Validated; Region: PRK05560 439235001570 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 439235001571 CAP-like domain; other site 439235001572 active site 439235001573 primary dimer interface [polypeptide binding]; other site 439235001574 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 439235001575 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 439235001576 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 439235001577 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 439235001578 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 439235001579 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 439235001580 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 439235001581 Domain of unknown function DUF20; Region: UPF0118; pfam01594 439235001582 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 439235001583 putative acyltransferase; Provisional; Region: PRK05790 439235001584 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 439235001585 dimer interface [polypeptide binding]; other site 439235001586 active site 439235001587 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235001588 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 439235001589 putative active site [active] 439235001590 heme pocket [chemical binding]; other site 439235001591 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 439235001592 dimer interface [polypeptide binding]; other site 439235001593 phosphorylation site [posttranslational modification] 439235001594 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 439235001595 ATP binding site [chemical binding]; other site 439235001596 Mg2+ binding site [ion binding]; other site 439235001597 G-X-G motif; other site 439235001598 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235001599 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 439235001600 active site 439235001601 phosphorylation site [posttranslational modification] 439235001602 intermolecular recognition site; other site 439235001603 dimerization interface [polypeptide binding]; other site 439235001604 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 439235001605 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 439235001606 substrate binding site [chemical binding]; other site 439235001607 activation loop (A-loop); other site 439235001608 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 439235001609 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 439235001610 dimerization interface [polypeptide binding]; other site 439235001611 active site 439235001612 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 439235001613 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 439235001614 HIGH motif; other site 439235001615 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 439235001616 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 439235001617 active site 439235001618 KMSKS motif; other site 439235001619 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 439235001620 tRNA binding surface [nucleotide binding]; other site 439235001621 anticodon binding site; other site 439235001622 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 439235001623 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 439235001624 RNA methyltransferase, RsmE family; Region: TIGR00046 439235001625 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 439235001626 DNA-binding site [nucleotide binding]; DNA binding site 439235001627 RNA-binding motif; other site 439235001628 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 439235001629 DNA-binding site [nucleotide binding]; DNA binding site 439235001630 RNA-binding motif; other site 439235001631 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 439235001632 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235001633 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 439235001634 putative active site [active] 439235001635 heme pocket [chemical binding]; other site 439235001636 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 439235001637 dimer interface [polypeptide binding]; other site 439235001638 phosphorylation site [posttranslational modification] 439235001639 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 439235001640 ATP binding site [chemical binding]; other site 439235001641 G-X-G motif; other site 439235001642 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 439235001643 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 439235001644 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 439235001645 Metallopeptidase family M24; Region: Peptidase_M24; pfam00557 439235001646 active site 439235001647 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 439235001648 G1 box; other site 439235001649 GTP/Mg2+ binding site [chemical binding]; other site 439235001650 G2 box; other site 439235001651 Switch I region; other site 439235001652 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 439235001653 G3 box; other site 439235001654 Switch II region; other site 439235001655 G4 box; other site 439235001656 G5 box; other site 439235001657 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 439235001658 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 439235001659 P-loop; other site 439235001660 Magnesium ion binding site [ion binding]; other site 439235001661 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 439235001662 Magnesium ion binding site [ion binding]; other site 439235001663 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 439235001664 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 439235001665 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 439235001666 active site 439235001667 Transposase [DNA replication, recombination, and repair]; Region: COG5421 439235001668 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 439235001669 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 439235001670 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439235001671 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 439235001672 ligand binding site [chemical binding]; other site 439235001673 flexible hinge region; other site 439235001674 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439235001675 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439235001676 metal binding site [ion binding]; metal-binding site 439235001677 active site 439235001678 I-site; other site 439235001679 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 439235001680 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 439235001681 FMN binding site [chemical binding]; other site 439235001682 substrate binding site [chemical binding]; other site 439235001683 putative catalytic residue [active] 439235001684 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 439235001685 active site 439235001686 HEAT repeats; Region: HEAT_2; pfam13646 439235001687 RelB antitoxin; Region: RelB; cl01171 439235001688 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 439235001689 domain_subunit interface; other site 439235001690 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 439235001691 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 439235001692 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 439235001693 LDH/MDH dimer interface [polypeptide binding]; other site 439235001694 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235001695 4Fe-4S binding domain; Region: Fer4_6; pfam12837 439235001696 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 439235001697 4Fe-4S binding domain; Region: Fer4; pfam00037 439235001698 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 439235001699 phosphate binding site [ion binding]; other site 439235001700 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 439235001701 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 439235001702 putative active site [active] 439235001703 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 439235001704 phosphate binding site [ion binding]; other site 439235001705 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 439235001706 GAF domain; Region: GAF; pfam01590 439235001707 ANTAR domain; Region: ANTAR; pfam03861 439235001708 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 439235001709 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 439235001710 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 439235001711 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 439235001712 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 439235001713 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439235001714 NAD(P) binding site [chemical binding]; other site 439235001715 active site 439235001716 Bacterial Ig-like domain; Region: Big_5; pfam13205 439235001717 Bacterial Ig-like domain; Region: Big_5; pfam13205 439235001718 Bacterial Ig-like domain; Region: Big_5; pfam13205 439235001719 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 439235001720 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 439235001721 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235001722 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 439235001723 putative active site [active] 439235001724 heme pocket [chemical binding]; other site 439235001725 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 439235001726 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235001727 putative active site [active] 439235001728 heme pocket [chemical binding]; other site 439235001729 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 439235001730 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 439235001731 putative active site [active] 439235001732 heme pocket [chemical binding]; other site 439235001733 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 439235001734 dimer interface [polypeptide binding]; other site 439235001735 phosphorylation site [posttranslational modification] 439235001736 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 439235001737 ATP binding site [chemical binding]; other site 439235001738 Mg2+ binding site [ion binding]; other site 439235001739 G-X-G motif; other site 439235001740 Response regulator receiver domain; Region: Response_reg; pfam00072 439235001741 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 439235001742 active site 439235001743 phosphorylation site [posttranslational modification] 439235001744 intermolecular recognition site; other site 439235001745 dimerization interface [polypeptide binding]; other site 439235001746 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 439235001747 Arylsulfotransferase (ASST); Region: Arylsulfotran_2; pfam14269 439235001748 Uncharacterized conserved protein [Function unknown]; Region: COG2006 439235001749 Domain of unknown function (DUF362); Region: DUF362; pfam04015 439235001750 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 439235001751 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 439235001752 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 439235001753 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 439235001754 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 439235001755 ATP-grasp domain; Region: ATP-grasp_4; cl17255 439235001756 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 439235001757 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 439235001758 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 439235001759 carboxyltransferase (CT) interaction site; other site 439235001760 biotinylation site [posttranslational modification]; other site 439235001761 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 439235001762 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 439235001763 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 439235001764 hypothetical protein; Reviewed; Region: PRK09588 439235001765 Uncharacterized protein family UPF0027; Region: UPF0027; cl17455 439235001766 RF-1 domain; Region: RF-1; cl17422 439235001767 Staphylococcal nuclease homologues; Region: SNc; smart00318 439235001768 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 439235001769 Catalytic site; other site 439235001770 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 439235001771 Sensory domain found in PocR; Region: PocR; pfam10114 439235001772 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 439235001773 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235001774 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 439235001775 putative active site [active] 439235001776 heme pocket [chemical binding]; other site 439235001777 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 439235001778 dimer interface [polypeptide binding]; other site 439235001779 phosphorylation site [posttranslational modification] 439235001780 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 439235001781 ATP binding site [chemical binding]; other site 439235001782 Mg2+ binding site [ion binding]; other site 439235001783 G-X-G motif; other site 439235001784 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235001785 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 439235001786 active site 439235001787 phosphorylation site [posttranslational modification] 439235001788 intermolecular recognition site; other site 439235001789 dimerization interface [polypeptide binding]; other site 439235001790 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 439235001791 substrate binding pocket [chemical binding]; other site 439235001792 membrane-bound complex binding site; other site 439235001793 hinge residues; other site 439235001794 PAS domain S-box; Region: sensory_box; TIGR00229 439235001795 PAS domain; Region: PAS; smart00091 439235001796 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235001797 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 439235001798 dimer interface [polypeptide binding]; other site 439235001799 phosphorylation site [posttranslational modification] 439235001800 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 439235001801 ATP binding site [chemical binding]; other site 439235001802 Mg2+ binding site [ion binding]; other site 439235001803 G-X-G motif; other site 439235001804 Response regulator receiver domain; Region: Response_reg; pfam00072 439235001805 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 439235001806 active site 439235001807 phosphorylation site [posttranslational modification] 439235001808 intermolecular recognition site; other site 439235001809 dimerization interface [polypeptide binding]; other site 439235001810 Response regulator receiver domain; Region: Response_reg; pfam00072 439235001811 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 439235001812 active site 439235001813 phosphorylation site [posttranslational modification] 439235001814 intermolecular recognition site; other site 439235001815 dimerization interface [polypeptide binding]; other site 439235001816 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235001817 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 439235001818 active site 439235001819 phosphorylation site [posttranslational modification] 439235001820 intermolecular recognition site; other site 439235001821 dimerization interface [polypeptide binding]; other site 439235001822 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439235001823 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439235001824 metal binding site [ion binding]; metal-binding site 439235001825 active site 439235001826 I-site; other site 439235001827 PAS domain; Region: PAS; smart00091 439235001828 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235001829 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 439235001830 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235001831 putative active site [active] 439235001832 heme pocket [chemical binding]; other site 439235001833 histidine kinase; Provisional; Region: PRK13557 439235001834 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 439235001835 putative active site [active] 439235001836 heme pocket [chemical binding]; other site 439235001837 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 439235001838 dimer interface [polypeptide binding]; other site 439235001839 phosphorylation site [posttranslational modification] 439235001840 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 439235001841 ATP binding site [chemical binding]; other site 439235001842 Mg2+ binding site [ion binding]; other site 439235001843 G-X-G motif; other site 439235001844 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 439235001845 active site 439235001846 phosphorylation site [posttranslational modification] 439235001847 intermolecular recognition site; other site 439235001848 dimerization interface [polypeptide binding]; other site 439235001849 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 439235001850 Ca2+ binding site [ion binding]; other site 439235001851 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 439235001852 Ca2+ binding site [ion binding]; other site 439235001853 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 439235001854 Ca2+ binding site [ion binding]; other site 439235001855 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 439235001856 Ca2+ binding site [ion binding]; other site 439235001857 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 439235001858 Ca2+ binding site [ion binding]; other site 439235001859 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 439235001860 Ca2+ binding site [ion binding]; other site 439235001861 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 439235001862 Ca2+ binding site [ion binding]; other site 439235001863 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 439235001864 Ca2+ binding site [ion binding]; other site 439235001865 Cadherin repeat-like domain; Region: CA_like; cl15786 439235001866 Ca2+ binding site [ion binding]; other site 439235001867 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 439235001868 Ca2+ binding site [ion binding]; other site 439235001869 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 439235001870 Ca2+ binding site [ion binding]; other site 439235001871 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 439235001872 Ca2+ binding site [ion binding]; other site 439235001873 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 439235001874 Ca2+ binding site [ion binding]; other site 439235001875 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 439235001876 Interdomain contacts; other site 439235001877 Cytokine receptor motif; other site 439235001878 Protein of unknown function (DUF523); Region: DUF523; pfam04463 439235001879 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 439235001880 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 439235001881 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 439235001882 active site 439235001883 Riboflavin kinase; Region: Flavokinase; pfam01687 439235001884 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 439235001885 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 439235001886 active site 439235001887 catalytic residues [active] 439235001888 metal binding site [ion binding]; metal-binding site 439235001889 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 439235001890 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 439235001891 putative active site [active] 439235001892 substrate binding site [chemical binding]; other site 439235001893 putative cosubstrate binding site; other site 439235001894 catalytic site [active] 439235001895 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 439235001896 substrate binding site [chemical binding]; other site 439235001897 16S rRNA methyltransferase B; Provisional; Region: PRK14902 439235001898 NusB family; Region: NusB; pfam01029 439235001899 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 439235001900 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 439235001901 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 439235001902 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 439235001903 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 439235001904 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 439235001905 substrate binding site [chemical binding]; other site 439235001906 hexamer interface [polypeptide binding]; other site 439235001907 metal binding site [ion binding]; metal-binding site 439235001908 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 439235001909 Dehydroquinase class II; Region: DHquinase_II; pfam01220 439235001910 trimer interface [polypeptide binding]; other site 439235001911 active site 439235001912 dimer interface [polypeptide binding]; other site 439235001913 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 439235001914 6-phosphogluconate dehydratase; Region: edd; TIGR01196 439235001915 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 439235001916 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 439235001917 PYR/PP interface [polypeptide binding]; other site 439235001918 dimer interface [polypeptide binding]; other site 439235001919 TPP binding site [chemical binding]; other site 439235001920 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 439235001921 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 439235001922 TPP-binding site [chemical binding]; other site 439235001923 dimer interface [polypeptide binding]; other site 439235001924 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 439235001925 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 439235001926 putative valine binding site [chemical binding]; other site 439235001927 dimer interface [polypeptide binding]; other site 439235001928 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 439235001929 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 439235001930 ketol-acid reductoisomerase; Region: ilvC; TIGR00465 439235001931 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 439235001932 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 439235001933 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 439235001934 active site 439235001935 catalytic residues [active] 439235001936 metal binding site [ion binding]; metal-binding site 439235001937 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 439235001938 2-isopropylmalate synthase; Validated; Region: PRK00915 439235001939 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 439235001940 active site 439235001941 catalytic residues [active] 439235001942 metal binding site [ion binding]; metal-binding site 439235001943 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 439235001944 CAAX protease self-immunity; Region: Abi; pfam02517 439235001945 aspartate aminotransferase; Provisional; Region: PRK06836 439235001946 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 439235001947 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235001948 homodimer interface [polypeptide binding]; other site 439235001949 catalytic residue [active] 439235001950 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 439235001951 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 439235001952 dimer interface [polypeptide binding]; other site 439235001953 active site 439235001954 CoA binding pocket [chemical binding]; other site 439235001955 NifU-like domain; Region: NifU; cl00484 439235001956 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 439235001957 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 439235001958 PAS domain S-box; Region: sensory_box; TIGR00229 439235001959 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 439235001960 putative active site [active] 439235001961 heme pocket [chemical binding]; other site 439235001962 PAS fold; Region: PAS_4; pfam08448 439235001963 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 439235001964 putative active site [active] 439235001965 heme pocket [chemical binding]; other site 439235001966 PAS domain S-box; Region: sensory_box; TIGR00229 439235001967 PAS domain; Region: PAS; smart00091 439235001968 histidine kinase; Provisional; Region: PRK13557 439235001969 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 439235001970 putative active site [active] 439235001971 heme pocket [chemical binding]; other site 439235001972 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 439235001973 dimer interface [polypeptide binding]; other site 439235001974 phosphorylation site [posttranslational modification] 439235001975 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 439235001976 ATP binding site [chemical binding]; other site 439235001977 Mg2+ binding site [ion binding]; other site 439235001978 G-X-G motif; other site 439235001979 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 439235001980 active site 439235001981 phosphorylation site [posttranslational modification] 439235001982 intermolecular recognition site; other site 439235001983 dimerization interface [polypeptide binding]; other site 439235001984 CHASE3 domain; Region: CHASE3; cl05000 439235001985 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 439235001986 dimer interface [polypeptide binding]; other site 439235001987 putative CheW interface [polypeptide binding]; other site 439235001988 PAS domain; Region: PAS_9; pfam13426 439235001989 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 439235001990 putative active site [active] 439235001991 heme pocket [chemical binding]; other site 439235001992 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 439235001993 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 439235001994 active site 439235001995 phosphorylation site [posttranslational modification] 439235001996 intermolecular recognition site; other site 439235001997 dimerization interface [polypeptide binding]; other site 439235001998 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 439235001999 DNA binding residues [nucleotide binding] 439235002000 dimerization interface [polypeptide binding]; other site 439235002001 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 439235002002 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 439235002003 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 439235002004 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 439235002005 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 439235002006 putative ADP-binding pocket [chemical binding]; other site 439235002007 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439235002008 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439235002009 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 439235002010 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 439235002011 catalytic core [active] 439235002012 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 439235002013 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 439235002014 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 439235002015 NodB motif; other site 439235002016 putative active site [active] 439235002017 putative catalytic site [active] 439235002018 putative Zn binding site [ion binding]; other site 439235002019 FtsX-like permease family; Region: FtsX; pfam02687 439235002020 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 439235002021 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 439235002022 Walker A/P-loop; other site 439235002023 ATP binding site [chemical binding]; other site 439235002024 Q-loop/lid; other site 439235002025 ABC transporter signature motif; other site 439235002026 Walker B; other site 439235002027 D-loop; other site 439235002028 H-loop/switch region; other site 439235002029 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 439235002030 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 439235002031 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 439235002032 metal binding site [ion binding]; metal-binding site 439235002033 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 439235002034 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 439235002035 FtsX-like permease family; Region: FtsX; pfam02687 439235002036 OPT oligopeptide transporter protein; Region: OPT; cl14607 439235002037 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235002038 Zn2+ binding site [ion binding]; other site 439235002039 Mg2+ binding site [ion binding]; other site 439235002040 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 439235002041 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 439235002042 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235002043 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 439235002044 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235002045 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 439235002046 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 439235002047 Walker A/P-loop; other site 439235002048 ATP binding site [chemical binding]; other site 439235002049 Q-loop/lid; other site 439235002050 ABC transporter signature motif; other site 439235002051 Walker B; other site 439235002052 D-loop; other site 439235002053 H-loop/switch region; other site 439235002054 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 439235002055 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 439235002056 FtsX-like permease family; Region: FtsX; pfam02687 439235002057 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 439235002058 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 439235002059 FtsX-like permease family; Region: FtsX; pfam02687 439235002060 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 439235002061 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 439235002062 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235002063 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235002064 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 439235002065 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 439235002066 active site 439235002067 substrate binding pocket [chemical binding]; other site 439235002068 homodimer interaction site [polypeptide binding]; other site 439235002069 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 439235002070 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235002071 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 439235002072 acyl-activating enzyme (AAE) consensus motif; other site 439235002073 putative AMP binding site [chemical binding]; other site 439235002074 putative active site [active] 439235002075 putative CoA binding site [chemical binding]; other site 439235002076 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 439235002077 Transposase; Region: DEDD_Tnp_IS110; pfam01548 439235002078 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 439235002079 NB-ARC domain; Region: NB-ARC; pfam00931 439235002080 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235002081 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235002082 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 439235002083 binding surface 439235002084 TPR motif; other site 439235002085 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235002086 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235002087 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 439235002088 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 439235002089 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 439235002090 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 439235002091 4Fe-4S binding domain; Region: Fer4; cl02805 439235002092 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 439235002093 malate dehydrogenase; Provisional; Region: PRK13529 439235002094 Malic enzyme, N-terminal domain; Region: malic; pfam00390 439235002095 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 439235002096 NAD(P) binding site [chemical binding]; other site 439235002097 HEAT repeats; Region: HEAT_2; pfam13646 439235002098 CAAX protease self-immunity; Region: Abi; pfam02517 439235002099 Transglycosylase; Region: Transgly; pfam00912 439235002100 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 439235002101 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 439235002102 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439235002103 Coenzyme A binding pocket [chemical binding]; other site 439235002104 Uncharacterized conserved protein [Function unknown]; Region: COG0398 439235002105 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 439235002106 Phosphoglycerate kinase; Region: PGK; pfam00162 439235002107 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 439235002108 substrate binding site [chemical binding]; other site 439235002109 hinge regions; other site 439235002110 ADP binding site [chemical binding]; other site 439235002111 catalytic site [active] 439235002112 Amidohydrolase; Region: Amidohydro_2; pfam04909 439235002113 active site 439235002114 CheD chemotactic sensory transduction; Region: CheD; cl00810 439235002115 Uncharacterized conserved protein [Function unknown]; Region: COG1262 439235002116 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 439235002117 DNA topoisomerase I; Validated; Region: PRK05582 439235002118 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 439235002119 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 439235002120 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 439235002121 DNA binding residues [nucleotide binding] 439235002122 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 439235002123 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 439235002124 NAD(P) binding site [chemical binding]; other site 439235002125 homodimer interface [polypeptide binding]; other site 439235002126 substrate binding site [chemical binding]; other site 439235002127 active site 439235002128 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 439235002129 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 439235002130 inhibitor-cofactor binding pocket; inhibition site 439235002131 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235002132 catalytic residue [active] 439235002133 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 439235002134 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 439235002135 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 439235002136 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 439235002137 ligand binding site; other site 439235002138 glutamate-1-semialdehyde 2,1-aminomutase; Provisional; Region: PRK06209 439235002139 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 439235002140 inhibitor-cofactor binding pocket; inhibition site 439235002141 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235002142 catalytic residue [active] 439235002143 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 439235002144 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 439235002145 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 439235002146 active site 439235002147 substrate binding site [chemical binding]; other site 439235002148 cosubstrate binding site; other site 439235002149 catalytic site [active] 439235002150 pseudaminic acid synthase; Region: PseI; TIGR03586 439235002151 NeuB family; Region: NeuB; pfam03102 439235002152 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 439235002153 NeuB binding interface [polypeptide binding]; other site 439235002154 putative substrate binding site [chemical binding]; other site 439235002155 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_III; cd01996 439235002156 Ligand Binding Site [chemical binding]; other site 439235002157 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13152 439235002158 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 439235002159 putative active site [active] 439235002160 oxyanion strand; other site 439235002161 catalytic triad [active] 439235002162 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 439235002163 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 439235002164 substrate binding site [chemical binding]; other site 439235002165 glutamase interaction surface [polypeptide binding]; other site 439235002166 methionyl-tRNA formyltransferase; Region: fmt; TIGR00460 439235002167 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 439235002168 cosubstrate binding site; other site 439235002169 catalytic site [active] 439235002170 Carboxy-terminal domain of Formyltransferase and similar domains; Region: FMT_C_like; cd08370 439235002171 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 439235002172 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 439235002173 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 439235002174 Domain of unknown function (DUF2172); Region: DUF2172; pfam09940 439235002175 metal binding site [ion binding]; metal-binding site 439235002176 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 439235002177 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 439235002178 TPR motif; other site 439235002179 TPR repeat; Region: TPR_11; pfam13414 439235002180 binding surface 439235002181 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 439235002182 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 439235002183 putative metal binding site; other site 439235002184 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 439235002185 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 439235002186 flagellin; Reviewed; Region: PRK08869 439235002187 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 439235002188 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 439235002189 flagellin; Reviewed; Region: PRK08869 439235002190 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 439235002191 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 439235002192 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 439235002193 Flagellin-specific chaperone FliS [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliS; COG1516 439235002194 FlaG protein; Region: FlaG; pfam03646 439235002195 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 439235002196 Response regulator receiver domain; Region: Response_reg; pfam00072 439235002197 active site 439235002198 phosphorylation site [posttranslational modification] 439235002199 intermolecular recognition site; other site 439235002200 dimerization interface [polypeptide binding]; other site 439235002201 Response regulator receiver domain; Region: Response_reg; pfam00072 439235002202 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 439235002203 active site 439235002204 phosphorylation site [posttranslational modification] 439235002205 intermolecular recognition site; other site 439235002206 dimerization interface [polypeptide binding]; other site 439235002207 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 439235002208 GAF domain; Region: GAF_3; pfam13492 439235002209 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 439235002210 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235002211 Zn2+ binding site [ion binding]; other site 439235002212 Mg2+ binding site [ion binding]; other site 439235002213 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 439235002214 CheD chemotactic sensory transduction; Region: CheD; cl00810 439235002215 HDOD domain; Region: HDOD; pfam08668 439235002216 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235002217 Zn2+ binding site [ion binding]; other site 439235002218 Mg2+ binding site [ion binding]; other site 439235002219 Response regulator receiver domain; Region: Response_reg; pfam00072 439235002220 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 439235002221 active site 439235002222 phosphorylation site [posttranslational modification] 439235002223 intermolecular recognition site; other site 439235002224 dimerization interface [polypeptide binding]; other site 439235002225 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 439235002226 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 439235002227 active site 439235002228 phosphorylation site [posttranslational modification] 439235002229 intermolecular recognition site; other site 439235002230 dimerization interface [polypeptide binding]; other site 439235002231 CheB methylesterase; Region: CheB_methylest; pfam01339 439235002232 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 439235002233 putative binding surface; other site 439235002234 active site 439235002235 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 439235002236 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 439235002237 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 439235002238 ATP binding site [chemical binding]; other site 439235002239 Mg2+ binding site [ion binding]; other site 439235002240 G-X-G motif; other site 439235002241 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 439235002242 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 439235002243 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 439235002244 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 439235002245 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 439235002246 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 439235002247 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 439235002248 active site 439235002249 phosphorylation site [posttranslational modification] 439235002250 intermolecular recognition site; other site 439235002251 dimerization interface [polypeptide binding]; other site 439235002252 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 439235002253 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 439235002254 active site 439235002255 phosphorylation site [posttranslational modification] 439235002256 intermolecular recognition site; other site 439235002257 dimerization interface [polypeptide binding]; other site 439235002258 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 439235002259 Walker A motif; other site 439235002260 ATP binding site [chemical binding]; other site 439235002261 Walker B motif; other site 439235002262 arginine finger; other site 439235002263 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235002264 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 439235002265 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 439235002266 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 439235002267 TPR motif; other site 439235002268 binding surface 439235002269 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 439235002270 binding surface 439235002271 TPR motif; other site 439235002272 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 439235002273 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 439235002274 active site 439235002275 phosphorylation site [posttranslational modification] 439235002276 intermolecular recognition site; other site 439235002277 dimerization interface [polypeptide binding]; other site 439235002278 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 439235002279 Walker A motif; other site 439235002280 ATP binding site [chemical binding]; other site 439235002281 Walker B motif; other site 439235002282 arginine finger; other site 439235002283 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235002284 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 439235002285 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 439235002286 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 439235002287 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 439235002288 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 439235002289 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 439235002290 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 439235002291 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 439235002292 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 439235002293 FliG C-terminal domain; Region: FliG_C; pfam01706 439235002294 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 439235002295 Flagellar assembly protein FliH; Region: FliH; pfam02108 439235002296 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 439235002297 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 439235002298 Walker A motif/ATP binding site; other site 439235002299 Walker B motif; other site 439235002300 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 439235002301 Uncharacterized conserved protein [Function unknown]; Region: COG3334 439235002302 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 439235002303 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 439235002304 HflX GTPase family; Region: HflX; cd01878 439235002305 G1 box; other site 439235002306 GTP/Mg2+ binding site [chemical binding]; other site 439235002307 Switch I region; other site 439235002308 G2 box; other site 439235002309 G3 box; other site 439235002310 Switch II region; other site 439235002311 G4 box; other site 439235002312 G5 box; other site 439235002313 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 439235002314 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 439235002315 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 439235002316 GatB domain; Region: GatB_Yqey; smart00845 439235002317 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 439235002318 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 439235002319 FeS/SAM binding site; other site 439235002320 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 439235002321 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 439235002322 catalytic loop [active] 439235002323 iron binding site [ion binding]; other site 439235002324 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 439235002325 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 439235002326 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 439235002327 ACS interaction site; other site 439235002328 CODH interaction site; other site 439235002329 metal cluster binding site [ion binding]; other site 439235002330 bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529 439235002331 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 439235002332 ACS interaction site; other site 439235002333 CODH interaction site; other site 439235002334 metal cluster binding site [ion binding]; other site 439235002335 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; pfam03598 439235002336 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 439235002337 Putative Fe-S cluster; Region: FeS; pfam04060 439235002338 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 439235002339 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 439235002340 substrate binding pocket [chemical binding]; other site 439235002341 dimer interface [polypeptide binding]; other site 439235002342 inhibitor binding site; inhibition site 439235002343 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 439235002344 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 439235002345 substrate binding site [chemical binding]; other site 439235002346 multimerization interface [polypeptide binding]; other site 439235002347 ATP binding site [chemical binding]; other site 439235002348 thiamine monophosphate kinase; Provisional; Region: PRK05731 439235002349 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 439235002350 ATP binding site [chemical binding]; other site 439235002351 dimerization interface [polypeptide binding]; other site 439235002352 Uncharacterized conserved protein [Function unknown]; Region: COG2128 439235002353 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 439235002354 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 439235002355 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 439235002356 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 439235002357 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 439235002358 active site 439235002359 metal binding site [ion binding]; metal-binding site 439235002360 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 439235002361 ADP-ribose binding site [chemical binding]; other site 439235002362 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 439235002363 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 439235002364 Amidase; Region: Amidase; pfam01425 439235002365 The MopB_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_1; cd02762 439235002366 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 439235002367 putative [Fe4-S4] binding site [ion binding]; other site 439235002368 putative molybdopterin cofactor binding site [chemical binding]; other site 439235002369 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 439235002370 putative molybdopterin cofactor binding site; other site 439235002371 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 439235002372 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 439235002373 acyl-activating enzyme (AAE) consensus motif; other site 439235002374 putative AMP binding site [chemical binding]; other site 439235002375 putative active site [active] 439235002376 putative CoA binding site [chemical binding]; other site 439235002377 Superfamily II helicase [General function prediction only]; Region: COG1204 439235002378 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 439235002379 ATP binding site [chemical binding]; other site 439235002380 putative Mg++ binding site [ion binding]; other site 439235002381 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 439235002382 nucleotide binding region [chemical binding]; other site 439235002383 ATP-binding site [chemical binding]; other site 439235002384 Transcriptional regulators [Transcription]; Region: FadR; COG2186 439235002385 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439235002386 DNA-binding site [nucleotide binding]; DNA binding site 439235002387 FCD domain; Region: FCD; pfam07729 439235002388 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 439235002389 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 439235002390 Walker A/P-loop; other site 439235002391 ATP binding site [chemical binding]; other site 439235002392 Q-loop/lid; other site 439235002393 ABC transporter signature motif; other site 439235002394 Walker B; other site 439235002395 D-loop; other site 439235002396 H-loop/switch region; other site 439235002397 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 439235002398 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 439235002399 Walker A/P-loop; other site 439235002400 ATP binding site [chemical binding]; other site 439235002401 Q-loop/lid; other site 439235002402 ABC transporter signature motif; other site 439235002403 Walker B; other site 439235002404 D-loop; other site 439235002405 H-loop/switch region; other site 439235002406 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439235002407 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 439235002408 TM-ABC transporter signature motif; other site 439235002409 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439235002410 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 439235002411 TM-ABC transporter signature motif; other site 439235002412 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 439235002413 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 439235002414 ligand binding site [chemical binding]; other site 439235002415 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 439235002416 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 439235002417 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 439235002418 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 439235002419 choline dehydrogenase; Validated; Region: PRK02106 439235002420 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 439235002421 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 439235002422 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235002423 putative active site [active] 439235002424 heme pocket [chemical binding]; other site 439235002425 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 439235002426 putative active site [active] 439235002427 heme pocket [chemical binding]; other site 439235002428 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235002429 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 439235002430 putative active site [active] 439235002431 heme pocket [chemical binding]; other site 439235002432 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 439235002433 putative active site [active] 439235002434 heme pocket [chemical binding]; other site 439235002435 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 439235002436 PAS fold; Region: PAS_3; pfam08447 439235002437 putative active site [active] 439235002438 heme pocket [chemical binding]; other site 439235002439 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 439235002440 dimer interface [polypeptide binding]; other site 439235002441 phosphorylation site [posttranslational modification] 439235002442 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 439235002443 ATP binding site [chemical binding]; other site 439235002444 Mg2+ binding site [ion binding]; other site 439235002445 G-X-G motif; other site 439235002446 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235002447 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 439235002448 active site 439235002449 phosphorylation site [posttranslational modification] 439235002450 intermolecular recognition site; other site 439235002451 dimerization interface [polypeptide binding]; other site 439235002452 UGMP family protein; Validated; Region: PRK09604 439235002453 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 439235002454 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 439235002455 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 439235002456 Mg++ binding site [ion binding]; other site 439235002457 putative catalytic motif [active] 439235002458 substrate binding site [chemical binding]; other site 439235002459 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 439235002460 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 439235002461 dimerization interface [polypeptide binding]; other site 439235002462 putative ATP binding site [chemical binding]; other site 439235002463 aminotransferase; Validated; Region: PRK08175 439235002464 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 439235002465 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235002466 homodimer interface [polypeptide binding]; other site 439235002467 catalytic residue [active] 439235002468 homoserine dehydrogenase; Provisional; Region: PRK06349 439235002469 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 439235002470 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 439235002471 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 439235002472 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 439235002473 motif II; other site 439235002474 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 439235002475 haemagglutination activity domain; Region: Haemagg_act; cl05436 439235002476 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 439235002477 Ligand Binding Site [chemical binding]; other site 439235002478 HflC protein; Region: hflC; TIGR01932 439235002479 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 439235002480 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 439235002481 HflK protein; Region: hflK; TIGR01933 439235002482 Protein of unknown function (DUF721); Region: DUF721; pfam05258 439235002483 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 439235002484 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 439235002485 S-adenosylmethionine binding site [chemical binding]; other site 439235002486 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 439235002487 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 439235002488 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; cd00316 439235002489 Nitrogenase subunit NifH (ATPase) [Inorganic ion transport and metabolism]; Region: NifH; COG1348 439235002490 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 439235002491 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; cd00316 439235002492 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 439235002493 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 439235002494 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235002495 acyl-activating enzyme (AAE) consensus motif; other site 439235002496 AMP binding site [chemical binding]; other site 439235002497 active site 439235002498 CoA binding site [chemical binding]; other site 439235002499 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235002500 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235002501 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235002502 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235002503 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 439235002504 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 439235002505 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 439235002506 Amidase; Region: Amidase; pfam01425 439235002507 2TM domain; Region: 2TM; pfam13239 439235002508 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 439235002509 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 439235002510 active site 439235002511 phosphorylation site [posttranslational modification] 439235002512 intermolecular recognition site; other site 439235002513 dimerization interface [polypeptide binding]; other site 439235002514 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 439235002515 Walker B motif; other site 439235002516 arginine finger; other site 439235002517 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 439235002518 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 439235002519 non-specific DNA binding site [nucleotide binding]; other site 439235002520 salt bridge; other site 439235002521 sequence-specific DNA binding site [nucleotide binding]; other site 439235002522 Staphylococcal nuclease homologues; Region: SNc; smart00318 439235002523 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 439235002524 Catalytic site; other site 439235002525 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 439235002526 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 439235002527 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 439235002528 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 439235002529 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 439235002530 L-aspartate oxidase; Provisional; Region: PRK06175 439235002531 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 439235002532 S-adenosylmethionine binding site [chemical binding]; other site 439235002533 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 439235002534 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 439235002535 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 439235002536 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 439235002537 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 439235002538 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235002539 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235002540 Predicted metal-binding protein (DUF2284); Region: DUF2284; cl02248 439235002541 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 439235002542 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235002543 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235002544 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235002545 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 439235002546 putative active site [active] 439235002547 heme pocket [chemical binding]; other site 439235002548 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 439235002549 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 439235002550 putative active site [active] 439235002551 heme pocket [chemical binding]; other site 439235002552 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 439235002553 dimer interface [polypeptide binding]; other site 439235002554 phosphorylation site [posttranslational modification] 439235002555 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 439235002556 ATP binding site [chemical binding]; other site 439235002557 Mg2+ binding site [ion binding]; other site 439235002558 G-X-G motif; other site 439235002559 Response regulator receiver domain; Region: Response_reg; pfam00072 439235002560 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 439235002561 active site 439235002562 phosphorylation site [posttranslational modification] 439235002563 intermolecular recognition site; other site 439235002564 dimerization interface [polypeptide binding]; other site 439235002565 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 439235002566 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 439235002567 cobalamin binding residues [chemical binding]; other site 439235002568 putative BtuC binding residues; other site 439235002569 dimer interface [polypeptide binding]; other site 439235002570 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 439235002571 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 439235002572 Walker A/P-loop; other site 439235002573 ATP binding site [chemical binding]; other site 439235002574 Q-loop/lid; other site 439235002575 ABC transporter signature motif; other site 439235002576 Walker B; other site 439235002577 D-loop; other site 439235002578 H-loop/switch region; other site 439235002579 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 439235002580 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 439235002581 dimer interface [polypeptide binding]; other site 439235002582 putative PBP binding regions; other site 439235002583 ABC-ATPase subunit interface; other site 439235002584 FOG: WD40 repeat [General function prediction only]; Region: COG2319 439235002585 biotin synthase; Region: bioB; TIGR00433 439235002586 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 439235002587 FeS/SAM binding site; other site 439235002588 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 439235002589 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 439235002590 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 439235002591 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 439235002592 nucleotide binding site [chemical binding]; other site 439235002593 putative NEF/HSP70 interaction site [polypeptide binding]; other site 439235002594 SBD interface [polypeptide binding]; other site 439235002595 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 439235002596 nucleotide binding site [chemical binding]; other site 439235002597 putative NEF/HSP70 interaction site [polypeptide binding]; other site 439235002598 SBD interface [polypeptide binding]; other site 439235002599 DNA-K related protein; Region: DUF3731; pfam12531 439235002600 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 439235002601 homotrimer interaction site [polypeptide binding]; other site 439235002602 zinc binding site [ion binding]; other site 439235002603 CDP-binding sites; other site 439235002604 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 439235002605 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 439235002606 active site 439235002607 HIGH motif; other site 439235002608 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 439235002609 KMSKS motif; other site 439235002610 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 439235002611 tRNA binding surface [nucleotide binding]; other site 439235002612 anticodon binding site; other site 439235002613 excinuclease ABC subunit B; Provisional; Region: PRK05298 439235002614 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 439235002615 ATP binding site [chemical binding]; other site 439235002616 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 439235002617 nucleotide binding region [chemical binding]; other site 439235002618 ATP-binding site [chemical binding]; other site 439235002619 Ultra-violet resistance protein B; Region: UvrB; pfam12344 439235002620 UvrB/uvrC motif; Region: UVR; pfam02151 439235002621 enoyl-CoA hydratase; Provisional; Region: PRK08140 439235002622 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 439235002623 substrate binding site [chemical binding]; other site 439235002624 oxyanion hole (OAH) forming residues; other site 439235002625 trimer interface [polypeptide binding]; other site 439235002626 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235002627 AAA domain; Region: AAA_23; pfam13476 439235002628 Walker A/P-loop; other site 439235002629 ATP binding site [chemical binding]; other site 439235002630 Q-loop/lid; other site 439235002631 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235002632 ABC transporter signature motif; other site 439235002633 Walker B; other site 439235002634 D-loop; other site 439235002635 H-loop/switch region; other site 439235002636 exonuclease subunit SbcD; Provisional; Region: PRK10966 439235002637 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 439235002638 active site 439235002639 metal binding site [ion binding]; metal-binding site 439235002640 DNA binding site [nucleotide binding] 439235002641 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 439235002642 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 439235002643 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 439235002644 GIY-YIG motif/motif A; other site 439235002645 active site 439235002646 catalytic site [active] 439235002647 putative DNA binding site [nucleotide binding]; other site 439235002648 metal binding site [ion binding]; metal-binding site 439235002649 UvrB/uvrC motif; Region: UVR; pfam02151 439235002650 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 439235002651 Helix-hairpin-helix motif; Region: HHH; pfam00633 439235002652 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 439235002653 dimer interface [polypeptide binding]; other site 439235002654 substrate binding site [chemical binding]; other site 439235002655 ATP binding site [chemical binding]; other site 439235002656 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235002657 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 439235002658 dimer interface [polypeptide binding]; other site 439235002659 phosphorylation site [posttranslational modification] 439235002660 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439235002661 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439235002662 metal binding site [ion binding]; metal-binding site 439235002663 active site 439235002664 I-site; other site 439235002665 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 439235002666 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 439235002667 FMN binding site [chemical binding]; other site 439235002668 substrate binding site [chemical binding]; other site 439235002669 putative catalytic residue [active] 439235002670 enoyl-CoA hydratase; Provisional; Region: PRK06142 439235002671 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 439235002672 substrate binding site [chemical binding]; other site 439235002673 oxyanion hole (OAH) forming residues; other site 439235002674 trimer interface [polypeptide binding]; other site 439235002675 Cache domain; Region: Cache_1; pfam02743 439235002676 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 439235002677 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 439235002678 dimerization interface [polypeptide binding]; other site 439235002679 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 439235002680 dimer interface [polypeptide binding]; other site 439235002681 putative CheW interface [polypeptide binding]; other site 439235002682 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 439235002683 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 439235002684 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 439235002685 IHF dimer interface [polypeptide binding]; other site 439235002686 IHF - DNA interface [nucleotide binding]; other site 439235002687 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 439235002688 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 439235002689 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 439235002690 P loop; other site 439235002691 GTP binding site [chemical binding]; other site 439235002692 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 439235002693 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 439235002694 Walker A/P-loop; other site 439235002695 ATP binding site [chemical binding]; other site 439235002696 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 439235002697 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 439235002698 ABC transporter signature motif; other site 439235002699 Walker B; other site 439235002700 D-loop; other site 439235002701 H-loop/switch region; other site 439235002702 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 439235002703 Protein of unknown function DUF2617; Region: DUF2617; pfam10936 439235002704 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 439235002705 Predicted membrane protein [Function unknown]; Region: COG3766 439235002706 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 439235002707 spermidine synthase; Provisional; Region: PRK03612 439235002708 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 439235002709 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 439235002710 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 439235002711 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 439235002712 Diacylglycerol kinase accessory domain; Region: DAGK_acc; cl02440 439235002713 O-methyltransferase; Region: Methyltransf_2; pfam00891 439235002714 Protein of unknown function (DUF805); Region: DUF805; pfam05656 439235002715 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 439235002716 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 439235002717 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 439235002718 heterodimer interface [polypeptide binding]; other site 439235002719 active site 439235002720 FMN binding site [chemical binding]; other site 439235002721 homodimer interface [polypeptide binding]; other site 439235002722 substrate binding site [chemical binding]; other site 439235002723 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 439235002724 FMN binding site [chemical binding]; other site 439235002725 dimer interface [polypeptide binding]; other site 439235002726 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 439235002727 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439235002728 Coenzyme A binding pocket [chemical binding]; other site 439235002729 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 439235002730 CTP synthetase; Validated; Region: pyrG; PRK05380 439235002731 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 439235002732 Catalytic site [active] 439235002733 active site 439235002734 UTP binding site [chemical binding]; other site 439235002735 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 439235002736 active site 439235002737 putative oxyanion hole; other site 439235002738 catalytic triad [active] 439235002739 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 439235002740 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 439235002741 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 439235002742 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 439235002743 RNA binding site [nucleotide binding]; other site 439235002744 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 439235002745 putative active site [active] 439235002746 dimerization interface [polypeptide binding]; other site 439235002747 putative tRNAtyr binding site [nucleotide binding]; other site 439235002748 Nickel-containing superoxide dismutase; Region: Sod_Ni; cl07609 439235002749 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 439235002750 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 439235002751 oligomer interface [polypeptide binding]; other site 439235002752 putative active site [active] 439235002753 metal binding site [ion binding]; metal-binding site 439235002754 enoyl-CoA hydratase; Provisional; Region: PRK09245 439235002755 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 439235002756 substrate binding site [chemical binding]; other site 439235002757 oxyanion hole (OAH) forming residues; other site 439235002758 trimer interface [polypeptide binding]; other site 439235002759 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 439235002760 S-adenosylmethionine binding site [chemical binding]; other site 439235002761 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 439235002762 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235002763 acyl-activating enzyme (AAE) consensus motif; other site 439235002764 AMP binding site [chemical binding]; other site 439235002765 active site 439235002766 CoA binding site [chemical binding]; other site 439235002767 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 439235002768 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 439235002769 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 439235002770 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 439235002771 S-adenosylmethionine binding site [chemical binding]; other site 439235002772 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235002773 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 439235002774 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235002775 active site 439235002776 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235002777 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235002778 active site 439235002779 malate dehydrogenase; Reviewed; Region: PRK06223 439235002780 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 439235002781 NAD(P) binding site [chemical binding]; other site 439235002782 dimer interface [polypeptide binding]; other site 439235002783 tetramer (dimer of dimers) interface [polypeptide binding]; other site 439235002784 substrate binding site [chemical binding]; other site 439235002785 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235002786 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235002787 active site 439235002788 Bacterial SH3 domain; Region: SH3_3; pfam08239 439235002789 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 439235002790 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 439235002791 putative dimer interface [polypeptide binding]; other site 439235002792 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 439235002793 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 439235002794 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 439235002795 active site 439235002796 Int/Topo IB signature motif; other site 439235002797 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 439235002798 histidinol dehydrogenase; Region: hisD; TIGR00069 439235002799 NAD binding site [chemical binding]; other site 439235002800 dimerization interface [polypeptide binding]; other site 439235002801 product binding site; other site 439235002802 substrate binding site [chemical binding]; other site 439235002803 zinc binding site [ion binding]; other site 439235002804 catalytic residues [active] 439235002805 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 439235002806 3-ketodihydrosphingosine reductase (KDSR) and related proteins, classical (c) SDR; Region: KDSR-like_SDR_c; cd08939 439235002807 putative NAD(P) binding site [chemical binding]; other site 439235002808 homotetramer interface [polypeptide binding]; other site 439235002809 active site 439235002810 homodimer interface [polypeptide binding]; other site 439235002811 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 439235002812 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 439235002813 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 439235002814 4Fe-4S binding domain; Region: Fer4_6; pfam12837 439235002815 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 439235002816 FeS/SAM binding site; other site 439235002817 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235002818 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235002819 WHG domain; Region: WHG; pfam13305 439235002820 LEA14-like dessication related protein [Defense mechanisms]; Region: COG5608 439235002821 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 439235002822 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 439235002823 DEAD/DEAH box helicase; Region: DEAD; pfam00270 439235002824 ATP binding site [chemical binding]; other site 439235002825 putative Mg++ binding site [ion binding]; other site 439235002826 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 439235002827 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 439235002828 nucleotide binding region [chemical binding]; other site 439235002829 ATP-binding site [chemical binding]; other site 439235002830 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 439235002831 elongation factor G; Reviewed; Region: PRK12740 439235002832 G1 box; other site 439235002833 putative GEF interaction site [polypeptide binding]; other site 439235002834 GTP/Mg2+ binding site [chemical binding]; other site 439235002835 Switch I region; other site 439235002836 G2 box; other site 439235002837 G3 box; other site 439235002838 Switch II region; other site 439235002839 G4 box; other site 439235002840 G5 box; other site 439235002841 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 439235002842 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 439235002843 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 439235002844 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 439235002845 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 439235002846 RNA binding surface [nucleotide binding]; other site 439235002847 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 439235002848 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 439235002849 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 439235002850 TPP-binding site; other site 439235002851 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 439235002852 PYR/PP interface [polypeptide binding]; other site 439235002853 dimer interface [polypeptide binding]; other site 439235002854 TPP binding site [chemical binding]; other site 439235002855 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 439235002856 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 439235002857 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 439235002858 substrate binding pocket [chemical binding]; other site 439235002859 chain length determination region; other site 439235002860 substrate-Mg2+ binding site; other site 439235002861 catalytic residues [active] 439235002862 aspartate-rich region 1; other site 439235002863 active site lid residues [active] 439235002864 aspartate-rich region 2; other site 439235002865 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 439235002866 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 439235002867 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 439235002868 generic binding surface II; other site 439235002869 generic binding surface I; other site 439235002870 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 439235002871 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 439235002872 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 439235002873 putative active site [active] 439235002874 TPR repeat; Region: TPR_11; pfam13414 439235002875 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 439235002876 binding surface 439235002877 TPR motif; other site 439235002878 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 439235002879 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 439235002880 Ligand binding site; other site 439235002881 Putative Catalytic site; other site 439235002882 DXD motif; other site 439235002883 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 439235002884 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 439235002885 dimer interface [polypeptide binding]; other site 439235002886 active site 439235002887 CoA binding pocket [chemical binding]; other site 439235002888 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 439235002889 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 439235002890 fumarate hydratase; Reviewed; Region: fumC; PRK00485 439235002891 aspartase (L-aspartate ammonia-lyase) and fumarase class II enzymes; Region: Aspartase_like; cd01596 439235002892 active sites [active] 439235002893 tetramer interface [polypeptide binding]; other site 439235002894 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 439235002895 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 439235002896 homodimer interface [polypeptide binding]; other site 439235002897 substrate-cofactor binding pocket; other site 439235002898 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235002899 catalytic residue [active] 439235002900 MarR family; Region: MarR; pfam01047 439235002901 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cl00248 439235002902 substrate binding site [chemical binding]; other site 439235002903 dimerization interface [polypeptide binding]; other site 439235002904 active site 439235002905 calcium binding site [ion binding]; other site 439235002906 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 439235002907 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 439235002908 acyl-activating enzyme (AAE) consensus motif; other site 439235002909 putative AMP binding site [chemical binding]; other site 439235002910 putative active site [active] 439235002911 putative CoA binding site [chemical binding]; other site 439235002912 Transposase [DNA replication, recombination, and repair]; Region: COG5421 439235002913 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 439235002914 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 439235002915 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 439235002916 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 439235002917 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 439235002918 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 439235002919 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 439235002920 dimer interface [polypeptide binding]; other site 439235002921 active site 439235002922 metal binding site [ion binding]; metal-binding site 439235002923 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 439235002924 SnoaL-like domain; Region: SnoaL_4; pfam13577 439235002925 SnoaL-like domain; Region: SnoaL_3; pfam13474 439235002926 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 439235002927 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 439235002928 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 439235002929 Walker A motif; other site 439235002930 ATP binding site [chemical binding]; other site 439235002931 Walker B motif; other site 439235002932 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 439235002933 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 439235002934 active site 439235002935 metal binding site [ion binding]; metal-binding site 439235002936 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 439235002937 S-adenosylmethionine binding site [chemical binding]; other site 439235002938 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 439235002939 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 439235002940 N-terminal plug; other site 439235002941 ligand-binding site [chemical binding]; other site 439235002942 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 439235002943 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 439235002944 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 439235002945 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 439235002946 dimer interface [polypeptide binding]; other site 439235002947 conserved gate region; other site 439235002948 putative PBP binding loops; other site 439235002949 ABC-ATPase subunit interface; other site 439235002950 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 439235002951 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 439235002952 ABC-ATPase subunit interface; other site 439235002953 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 439235002954 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439235002955 Walker A/P-loop; other site 439235002956 ATP binding site [chemical binding]; other site 439235002957 Q-loop/lid; other site 439235002958 ABC transporter signature motif; other site 439235002959 Walker B; other site 439235002960 D-loop; other site 439235002961 H-loop/switch region; other site 439235002962 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 439235002963 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 439235002964 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439235002965 Walker A/P-loop; other site 439235002966 ATP binding site [chemical binding]; other site 439235002967 Q-loop/lid; other site 439235002968 ABC transporter signature motif; other site 439235002969 Walker B; other site 439235002970 D-loop; other site 439235002971 H-loop/switch region; other site 439235002972 enoyl-CoA hydratase; Provisional; Region: PRK08260 439235002973 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 439235002974 substrate binding site [chemical binding]; other site 439235002975 oxyanion hole (OAH) forming residues; other site 439235002976 trimer interface [polypeptide binding]; other site 439235002977 PAS domain S-box; Region: sensory_box; TIGR00229 439235002978 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 439235002979 putative active site [active] 439235002980 heme pocket [chemical binding]; other site 439235002981 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235002982 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 439235002983 dimer interface [polypeptide binding]; other site 439235002984 phosphorylation site [posttranslational modification] 439235002985 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 439235002986 ATP binding site [chemical binding]; other site 439235002987 Mg2+ binding site [ion binding]; other site 439235002988 G-X-G motif; other site 439235002989 Response regulator receiver domain; Region: Response_reg; pfam00072 439235002990 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 439235002991 active site 439235002992 phosphorylation site [posttranslational modification] 439235002993 intermolecular recognition site; other site 439235002994 dimerization interface [polypeptide binding]; other site 439235002995 Response regulator receiver domain; Region: Response_reg; pfam00072 439235002996 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 439235002997 active site 439235002998 phosphorylation site [posttranslational modification] 439235002999 intermolecular recognition site; other site 439235003000 dimerization interface [polypeptide binding]; other site 439235003001 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 439235003002 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 439235003003 Response regulator receiver domain; Region: Response_reg; pfam00072 439235003004 active site 439235003005 phosphorylation site [posttranslational modification] 439235003006 intermolecular recognition site; other site 439235003007 dimerization interface [polypeptide binding]; other site 439235003008 HDOD domain; Region: HDOD; pfam08668 439235003009 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 439235003010 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 439235003011 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 439235003012 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 439235003013 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 439235003014 dimerization interface [polypeptide binding]; other site 439235003015 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 439235003016 dimer interface [polypeptide binding]; other site 439235003017 phosphorylation site [posttranslational modification] 439235003018 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 439235003019 ATP binding site [chemical binding]; other site 439235003020 Mg2+ binding site [ion binding]; other site 439235003021 G-X-G motif; other site 439235003022 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 439235003023 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 439235003024 active site 439235003025 phosphorylation site [posttranslational modification] 439235003026 intermolecular recognition site; other site 439235003027 dimerization interface [polypeptide binding]; other site 439235003028 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 439235003029 DNA binding site [nucleotide binding] 439235003030 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 439235003031 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 439235003032 putative NADP binding site [chemical binding]; other site 439235003033 putative substrate binding site [chemical binding]; other site 439235003034 active site 439235003035 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 439235003036 Glucosamine 6-phosphate synthetase, contains amidotransferase and phosphosugar isomerase domains [Cell envelope biogenesis, outer membrane]; Region: GlmS; COG0449 439235003037 active site 439235003038 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 439235003039 dimer interface [polypeptide binding]; other site 439235003040 active site 439235003041 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 439235003042 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 439235003043 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 439235003044 active site 439235003045 NAD binding site [chemical binding]; other site 439235003046 metal binding site [ion binding]; metal-binding site 439235003047 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 439235003048 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 439235003049 inhibitor-cofactor binding pocket; inhibition site 439235003050 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235003051 catalytic residue [active] 439235003052 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 439235003053 anti sigma factor interaction site; other site 439235003054 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 439235003055 regulatory phosphorylation site [posttranslational modification]; other site 439235003056 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 439235003057 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 439235003058 active site 439235003059 homodimer interface [polypeptide binding]; other site 439235003060 catalytic site [active] 439235003061 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 439235003062 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 439235003063 active site 439235003064 catalytic tetrad [active] 439235003065 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 439235003066 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 439235003067 active site 439235003068 catalytic site [active] 439235003069 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 439235003070 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 439235003071 glycogen synthase; Provisional; Region: glgA; PRK00654 439235003072 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 439235003073 ADP-binding pocket [chemical binding]; other site 439235003074 homodimer interface [polypeptide binding]; other site 439235003075 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]; Region: GlgB; COG0296 439235003076 N-terminal Early set domain associated with the catalytic domain of eukaryotic glycogen branching enzyme (also called 1,4 alpha glucan branching enzyme); Region: E_set_GBE_euk_N; cd02854 439235003077 Alpha amylase catalytic domain found in bacterial and eukaryotic branching enzymes; Region: AmyAc_bac_euk_BE; cd11321 439235003078 active site 439235003079 catalytic site [active] 439235003080 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 439235003081 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 439235003082 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 439235003083 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 439235003084 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 439235003085 Transposase IS200 like; Region: Y1_Tnp; pfam01797 439235003086 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 439235003087 dimer interface [polypeptide binding]; other site 439235003088 phosphorylation site [posttranslational modification] 439235003089 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 439235003090 ATP binding site [chemical binding]; other site 439235003091 Mg2+ binding site [ion binding]; other site 439235003092 G-X-G motif; other site 439235003093 Response regulator receiver domain; Region: Response_reg; pfam00072 439235003094 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 439235003095 active site 439235003096 phosphorylation site [posttranslational modification] 439235003097 intermolecular recognition site; other site 439235003098 dimerization interface [polypeptide binding]; other site 439235003099 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 439235003100 CheB methylesterase; Region: CheB_methylest; pfam01339 439235003101 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 439235003102 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 439235003103 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 439235003104 PAS domain; Region: PAS_10; pfam13596 439235003105 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 439235003106 putative active site [active] 439235003107 heme pocket [chemical binding]; other site 439235003108 PAS domain S-box; Region: sensory_box; TIGR00229 439235003109 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 439235003110 putative active site [active] 439235003111 heme pocket [chemical binding]; other site 439235003112 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 439235003113 NAD binding site [chemical binding]; other site 439235003114 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 439235003115 homodimer interface [polypeptide binding]; other site 439235003116 active site 439235003117 PAS domain S-box; Region: sensory_box; TIGR00229 439235003118 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 439235003119 putative active site [active] 439235003120 heme pocket [chemical binding]; other site 439235003121 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 439235003122 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 439235003123 Response regulator receiver domain; Region: Response_reg; pfam00072 439235003124 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 439235003125 active site 439235003126 phosphorylation site [posttranslational modification] 439235003127 intermolecular recognition site; other site 439235003128 dimerization interface [polypeptide binding]; other site 439235003129 DDE superfamily endonuclease; Region: DDE_5; cl17874 439235003130 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 439235003131 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 439235003132 Predicted membrane protein [Function unknown]; Region: COG1238 439235003133 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 439235003134 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 439235003135 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 439235003136 S-adenosylmethionine binding site [chemical binding]; other site 439235003137 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 439235003138 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 439235003139 FeS/SAM binding site; other site 439235003140 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 439235003141 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 439235003142 substrate binding pocket [chemical binding]; other site 439235003143 membrane-bound complex binding site; other site 439235003144 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 439235003145 hinge residues; other site 439235003146 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 439235003147 N-acetyl-D-glucosamine binding site [chemical binding]; other site 439235003148 catalytic residue [active] 439235003149 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235003150 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235003151 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235003152 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235003153 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235003154 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK03640 439235003155 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235003156 acyl-activating enzyme (AAE) consensus motif; other site 439235003157 acyl-activating enzyme (AAE) consensus motif; other site 439235003158 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235003159 active site 439235003160 CoA binding site [chemical binding]; other site 439235003161 AMP binding site [chemical binding]; other site 439235003162 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 439235003163 CoA-transferase family III; Region: CoA_transf_3; pfam02515 439235003164 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 439235003165 ParB-like nuclease domain; Region: ParBc; pfam02195 439235003166 Sexual stage antigen s48/45 domain; Region: s48_45; pfam07422 439235003167 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 439235003168 active site 439235003169 ATP binding site [chemical binding]; other site 439235003170 substrate binding site [chemical binding]; other site 439235003171 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 439235003172 active site 439235003173 metal binding site [ion binding]; metal-binding site 439235003174 homotetramer interface [polypeptide binding]; other site 439235003175 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 439235003176 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 439235003177 replicative DNA helicase; Region: DnaB; TIGR00665 439235003178 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 439235003179 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 439235003180 Walker A motif; other site 439235003181 ATP binding site [chemical binding]; other site 439235003182 Walker B motif; other site 439235003183 DNA binding loops [nucleotide binding] 439235003184 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 439235003185 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 439235003186 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 439235003187 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 439235003188 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 439235003189 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 439235003190 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 439235003191 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 439235003192 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 439235003193 dimerization interface [polypeptide binding]; other site 439235003194 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 439235003195 putative active site [active] 439235003196 heme pocket [chemical binding]; other site 439235003197 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 439235003198 dimer interface [polypeptide binding]; other site 439235003199 phosphorylation site [posttranslational modification] 439235003200 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 439235003201 ATP binding site [chemical binding]; other site 439235003202 Mg2+ binding site [ion binding]; other site 439235003203 G-X-G motif; other site 439235003204 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 439235003205 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 439235003206 active site 439235003207 phosphorylation site [posttranslational modification] 439235003208 intermolecular recognition site; other site 439235003209 dimerization interface [polypeptide binding]; other site 439235003210 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 439235003211 Walker A motif; other site 439235003212 ATP binding site [chemical binding]; other site 439235003213 Walker B motif; other site 439235003214 arginine finger; other site 439235003215 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 439235003216 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 439235003217 S-adenosylmethionine binding site [chemical binding]; other site 439235003218 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 439235003219 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 439235003220 active site 439235003221 (T/H)XGH motif; other site 439235003222 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 439235003223 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439235003224 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 439235003225 putative dimerization interface [polypeptide binding]; other site 439235003226 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 439235003227 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 439235003228 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 439235003229 active site 439235003230 dimer interface [polypeptide binding]; other site 439235003231 effector binding site; other site 439235003232 TSCPD domain; Region: TSCPD; pfam12637 439235003233 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 439235003234 S-adenosylmethionine binding site [chemical binding]; other site 439235003235 spermidine synthase; Provisional; Region: PRK03612 439235003236 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 439235003237 S-adenosylmethionine binding site [chemical binding]; other site 439235003238 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 439235003239 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 439235003240 active site 439235003241 PHP Thumb interface [polypeptide binding]; other site 439235003242 metal binding site [ion binding]; metal-binding site 439235003243 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 439235003244 generic binding surface II; other site 439235003245 generic binding surface I; other site 439235003246 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 439235003247 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 439235003248 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 439235003249 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 439235003250 active site 439235003251 tRNA threonylcarbamoyl adenosine modification protein, Sua5/YciO/YrdC/YwlC family; Region: TIGR00057 439235003252 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 439235003253 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 439235003254 RNA binding site [nucleotide binding]; other site 439235003255 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 439235003256 RNA binding site [nucleotide binding]; other site 439235003257 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 439235003258 RNA binding site [nucleotide binding]; other site 439235003259 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 439235003260 RNA binding site [nucleotide binding]; other site 439235003261 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 439235003262 RNA binding site [nucleotide binding]; other site 439235003263 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 439235003264 RNA binding site [nucleotide binding]; other site 439235003265 cytidylate kinase; Provisional; Region: cmk; PRK00023 439235003266 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 439235003267 CMP-binding site; other site 439235003268 The sites determining sugar specificity; other site 439235003269 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 439235003270 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 439235003271 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235003272 homodimer interface [polypeptide binding]; other site 439235003273 catalytic residue [active] 439235003274 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 439235003275 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 439235003276 RNA/DNA hybrid binding site [nucleotide binding]; other site 439235003277 active site 439235003278 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 439235003279 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 439235003280 acyl-activating enzyme (AAE) consensus motif; other site 439235003281 putative AMP binding site [chemical binding]; other site 439235003282 putative active site [active] 439235003283 putative CoA binding site [chemical binding]; other site 439235003284 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 439235003285 dimerization interface [polypeptide binding]; other site 439235003286 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 439235003287 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 439235003288 dimer interface [polypeptide binding]; other site 439235003289 putative CheW interface [polypeptide binding]; other site 439235003290 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 439235003291 Response regulator receiver domain; Region: Response_reg; pfam00072 439235003292 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 439235003293 putative active site [active] 439235003294 heme pocket [chemical binding]; other site 439235003295 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 439235003296 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 439235003297 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439235003298 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439235003299 metal binding site [ion binding]; metal-binding site 439235003300 active site 439235003301 I-site; other site 439235003302 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 439235003303 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 439235003304 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 439235003305 FeS/SAM binding site; other site 439235003306 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 439235003307 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 439235003308 MOFRL family; Region: MOFRL; pfam05161 439235003309 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 439235003310 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 439235003311 Nucleoside recognition; Region: Gate; pfam07670 439235003312 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 439235003313 Transposase IS200 like; Region: Y1_Tnp; cl00848 439235003314 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 439235003315 S-adenosylmethionine binding site [chemical binding]; other site 439235003316 Dodecin; Region: Dodecin; pfam07311 439235003317 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235003318 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 439235003319 active site 439235003320 phosphorylation site [posttranslational modification] 439235003321 intermolecular recognition site; other site 439235003322 dimerization interface [polypeptide binding]; other site 439235003323 Response regulator receiver domain; Region: Response_reg; pfam00072 439235003324 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 439235003325 active site 439235003326 phosphorylation site [posttranslational modification] 439235003327 intermolecular recognition site; other site 439235003328 dimerization interface [polypeptide binding]; other site 439235003329 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439235003330 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439235003331 metal binding site [ion binding]; metal-binding site 439235003332 active site 439235003333 I-site; other site 439235003334 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439235003335 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 439235003336 ligand binding site [chemical binding]; other site 439235003337 flexible hinge region; other site 439235003338 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 439235003339 putative switch regulator; other site 439235003340 non-specific DNA interactions [nucleotide binding]; other site 439235003341 DNA binding site [nucleotide binding] 439235003342 sequence specific DNA binding site [nucleotide binding]; other site 439235003343 putative cAMP binding site [chemical binding]; other site 439235003344 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 439235003345 Peptidase family M23; Region: Peptidase_M23; pfam01551 439235003346 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 439235003347 thiamine phosphate binding site [chemical binding]; other site 439235003348 active site 439235003349 pyrophosphate binding site [ion binding]; other site 439235003350 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 439235003351 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 439235003352 Catalytic site [active] 439235003353 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 439235003354 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 439235003355 substrate binding site [chemical binding]; other site 439235003356 oxyanion hole (OAH) forming residues; other site 439235003357 trimer interface [polypeptide binding]; other site 439235003358 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 439235003359 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 439235003360 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 439235003361 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 439235003362 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 439235003363 Walker A motif; other site 439235003364 ATP binding site [chemical binding]; other site 439235003365 Walker B motif; other site 439235003366 Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]; Region: PlsB; COG2937 439235003367 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 439235003368 putative acyl-acceptor binding pocket; other site 439235003369 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 439235003370 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 439235003371 Substrate binding site; other site 439235003372 metal-binding site 439235003373 Phosphotransferase enzyme family; Region: APH; pfam01636 439235003374 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 439235003375 Probable dihydrodipicolinate reductase; Region: PLN02775 439235003376 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 439235003377 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 439235003378 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 439235003379 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 439235003380 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 439235003381 dimer interface [polypeptide binding]; other site 439235003382 conserved gate region; other site 439235003383 putative PBP binding loops; other site 439235003384 ABC-ATPase subunit interface; other site 439235003385 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 439235003386 dimer interface [polypeptide binding]; other site 439235003387 conserved gate region; other site 439235003388 putative PBP binding loops; other site 439235003389 ABC-ATPase subunit interface; other site 439235003390 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 439235003391 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439235003392 Walker A/P-loop; other site 439235003393 ATP binding site [chemical binding]; other site 439235003394 Q-loop/lid; other site 439235003395 ABC transporter signature motif; other site 439235003396 Walker B; other site 439235003397 D-loop; other site 439235003398 H-loop/switch region; other site 439235003399 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 439235003400 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 439235003401 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439235003402 Walker A/P-loop; other site 439235003403 ATP binding site [chemical binding]; other site 439235003404 Q-loop/lid; other site 439235003405 ABC transporter signature motif; other site 439235003406 Walker B; other site 439235003407 D-loop; other site 439235003408 H-loop/switch region; other site 439235003409 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 439235003410 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 439235003411 RDD family; Region: RDD; pfam06271 439235003412 hypothetical protein; Provisional; Region: PRK01254 439235003413 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 439235003414 MoxR-like ATPases [General function prediction only]; Region: COG0714 439235003415 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 439235003416 Walker A motif; other site 439235003417 ATP binding site [chemical binding]; other site 439235003418 Walker B motif; other site 439235003419 arginine finger; other site 439235003420 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 439235003421 Protein of unknown function DUF58; Region: DUF58; pfam01882 439235003422 Integral membrane protein DUF95; Region: DUF95; pfam01944 439235003423 RDD family; Region: RDD; pfam06271 439235003424 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 439235003425 anti sigma factor interaction site; other site 439235003426 regulatory phosphorylation site [posttranslational modification]; other site 439235003427 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 439235003428 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 439235003429 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_family; cd02803 439235003430 active site 439235003431 FMN binding site [chemical binding]; other site 439235003432 substrate binding site [chemical binding]; other site 439235003433 putative catalytic residue [active] 439235003434 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235003435 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235003436 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 439235003437 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 439235003438 binding surface 439235003439 TPR motif; other site 439235003440 flagellar assembly protein FliW; Provisional; Region: PRK13285 439235003441 Global regulator protein family; Region: CsrA; pfam02599 439235003442 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 439235003443 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 439235003444 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 439235003445 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 439235003446 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 439235003447 FlgN protein; Region: FlgN; pfam05130 439235003448 Rod binding protein; Region: Rod-binding; cl01626 439235003449 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 439235003450 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 439235003451 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12696 439235003452 Flagellar L-ring protein; Region: FlgH; pfam02107 439235003453 SAF-like; Region: SAF_2; pfam13144 439235003454 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 439235003455 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 439235003456 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 439235003457 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 439235003458 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 439235003459 flagellar hook-basal body protein; Region: FlgEFG_subfam; TIGR03506 439235003460 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 439235003461 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 439235003462 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 439235003463 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 439235003464 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 439235003465 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 439235003466 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 439235003467 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 439235003468 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 439235003469 DNA binding residues [nucleotide binding] 439235003470 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 439235003471 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 439235003472 P-loop; other site 439235003473 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 439235003474 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 439235003475 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235003476 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 439235003477 Walker A/P-loop; other site 439235003478 ATP binding site [chemical binding]; other site 439235003479 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 439235003480 FHIPEP family; Region: FHIPEP; pfam00771 439235003481 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 439235003482 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 439235003483 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 439235003484 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 439235003485 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 439235003486 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 439235003487 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 439235003488 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 439235003489 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 439235003490 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 439235003491 flagellar motor protein MotS; Reviewed; Region: PRK06925 439235003492 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 439235003493 ligand binding site [chemical binding]; other site 439235003494 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 439235003495 ligand binding site [chemical binding]; other site 439235003496 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 439235003497 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 439235003498 flagellar hook protein FlgE; Validated; Region: flgE; PRK08425 439235003499 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 439235003500 Flagellar hook capping protein [Cell motility and secretion]; Region: FlgD; COG1843 439235003501 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 439235003502 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 439235003503 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 439235003504 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 439235003505 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 439235003506 phosphofructokinase; Region: PFK_mixed; TIGR02483 439235003507 active site 439235003508 ADP/pyrophosphate binding site [chemical binding]; other site 439235003509 dimerization interface [polypeptide binding]; other site 439235003510 allosteric effector site; other site 439235003511 fructose-1,6-bisphosphate binding site; other site 439235003512 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 439235003513 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 439235003514 active site 439235003515 dimer interface [polypeptide binding]; other site 439235003516 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 439235003517 dimer interface [polypeptide binding]; other site 439235003518 active site 439235003519 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 439235003520 CoA binding domain; Region: CoA_binding_2; pfam13380 439235003521 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 439235003522 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 439235003523 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 439235003524 Sensors of blue-light using FAD; Region: BLUF; pfam04940 439235003525 Right handed beta helix region; Region: Beta_helix; pfam13229 439235003526 Right handed beta helix region; Region: Beta_helix; pfam13229 439235003527 Right handed beta helix region; Region: Beta_helix; pfam13229 439235003528 Right handed beta helix region; Region: Beta_helix; pfam13229 439235003529 Disaggregatase related; Region: Disaggr_assoc; pfam08480 439235003530 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 439235003531 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 439235003532 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 439235003533 dimerization interface [polypeptide binding]; other site 439235003534 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235003535 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 439235003536 dimer interface [polypeptide binding]; other site 439235003537 phosphorylation site [posttranslational modification] 439235003538 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 439235003539 ATP binding site [chemical binding]; other site 439235003540 Mg2+ binding site [ion binding]; other site 439235003541 G-X-G motif; other site 439235003542 PAS domain S-box; Region: sensory_box; TIGR00229 439235003543 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 439235003544 putative active site [active] 439235003545 heme pocket [chemical binding]; other site 439235003546 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 439235003547 PAS fold; Region: PAS_3; pfam08447 439235003548 putative active site [active] 439235003549 heme pocket [chemical binding]; other site 439235003550 PAS domain; Region: PAS_9; pfam13426 439235003551 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235003552 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 439235003553 dimer interface [polypeptide binding]; other site 439235003554 phosphorylation site [posttranslational modification] 439235003555 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 439235003556 ATP binding site [chemical binding]; other site 439235003557 Mg2+ binding site [ion binding]; other site 439235003558 G-X-G motif; other site 439235003559 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235003560 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 439235003561 active site 439235003562 phosphorylation site [posttranslational modification] 439235003563 intermolecular recognition site; other site 439235003564 dimerization interface [polypeptide binding]; other site 439235003565 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 439235003566 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 439235003567 ATP binding site [chemical binding]; other site 439235003568 Mg2+ binding site [ion binding]; other site 439235003569 G-X-G motif; other site 439235003570 enoyl-CoA hydratase; Provisional; Region: PRK06688 439235003571 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 439235003572 substrate binding site [chemical binding]; other site 439235003573 oxyanion hole (OAH) forming residues; other site 439235003574 trimer interface [polypeptide binding]; other site 439235003575 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 439235003576 Smr domain; Region: Smr; pfam01713 439235003577 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 439235003578 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 439235003579 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235003580 active site 439235003581 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 439235003582 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 439235003583 CoenzymeA binding site [chemical binding]; other site 439235003584 subunit interaction site [polypeptide binding]; other site 439235003585 PHB binding site; other site 439235003586 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 439235003587 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 439235003588 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 439235003589 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 439235003590 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 439235003591 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 439235003592 ligand binding site [chemical binding]; other site 439235003593 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 439235003594 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 439235003595 active site 439235003596 Methyltransferase domain; Region: Methyltransf_24; pfam13578 439235003597 Methyltransferase domain; Region: Methyltransf_11; pfam08241 439235003598 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 439235003599 binding surface 439235003600 TPR motif; other site 439235003601 Tetratricopeptide repeat; Region: TPR_16; pfam13432 439235003602 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 439235003603 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 439235003604 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 439235003605 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 439235003606 Walker A/P-loop; other site 439235003607 ATP binding site [chemical binding]; other site 439235003608 Q-loop/lid; other site 439235003609 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 439235003610 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235003611 Q-loop/lid; other site 439235003612 ABC transporter signature motif; other site 439235003613 Walker B; other site 439235003614 D-loop; other site 439235003615 H-loop/switch region; other site 439235003616 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439235003617 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 439235003618 ligand binding site [chemical binding]; other site 439235003619 flexible hinge region; other site 439235003620 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 439235003621 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 439235003622 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 439235003623 anti sigma factor interaction site; other site 439235003624 regulatory phosphorylation site [posttranslational modification]; other site 439235003625 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 439235003626 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 439235003627 2-Nitropropane dioxygenase (NPD)-like domain, associated with the (acyl-carrier-protein) S-malonyltransferase FabD. NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding...; Region: NPD_FabD; cd04742 439235003628 FMN binding site [chemical binding]; other site 439235003629 substrate binding site [chemical binding]; other site 439235003630 putative catalytic residue [active] 439235003631 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 439235003632 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 439235003633 active site 439235003634 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 439235003635 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 439235003636 active site 439235003637 Acyl transferase domain; Region: Acyl_transf_1; cl08282 439235003638 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 439235003639 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 439235003640 active site 1 [active] 439235003641 dimer interface [polypeptide binding]; other site 439235003642 active site 2 [active] 439235003643 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 439235003644 active site 1 [active] 439235003645 dimer interface [polypeptide binding]; other site 439235003646 active site 2 [active] 439235003647 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 439235003648 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 439235003649 active site 439235003650 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 439235003651 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 439235003652 Phosphopantetheine attachment site; Region: PP-binding; cl09936 439235003653 Phosphopantetheine attachment site; Region: PP-binding; cl09936 439235003654 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 439235003655 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 439235003656 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 439235003657 putative NADP binding site [chemical binding]; other site 439235003658 active site 439235003659 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235003660 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235003661 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235003662 Tetratricopeptide repeat; Region: TPR_10; pfam13374 439235003663 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 439235003664 Epoxide hydrolase N terminus; Region: EHN; pfam06441 439235003665 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 439235003666 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 439235003667 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 439235003668 PYR/PP interface [polypeptide binding]; other site 439235003669 dimer interface [polypeptide binding]; other site 439235003670 TPP binding site [chemical binding]; other site 439235003671 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 439235003672 transketolase; Reviewed; Region: PRK05899 439235003673 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 439235003674 TPP-binding site [chemical binding]; other site 439235003675 dimer interface [polypeptide binding]; other site 439235003676 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 439235003677 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 439235003678 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 439235003679 catalytic residue [active] 439235003680 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 439235003681 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 439235003682 hexamer interface [polypeptide binding]; other site 439235003683 ligand binding site [chemical binding]; other site 439235003684 putative active site [active] 439235003685 NAD(P) binding site [chemical binding]; other site 439235003686 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 439235003687 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235003688 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 439235003689 LuxQ, periplasmic; Region: LuxQ-periplasm; pfam09308 439235003690 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 439235003691 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235003692 putative active site [active] 439235003693 heme pocket [chemical binding]; other site 439235003694 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235003695 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 439235003696 putative active site [active] 439235003697 heme pocket [chemical binding]; other site 439235003698 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 439235003699 ATP binding site [chemical binding]; other site 439235003700 Mg2+ binding site [ion binding]; other site 439235003701 G-X-G motif; other site 439235003702 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235003703 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 439235003704 active site 439235003705 phosphorylation site [posttranslational modification] 439235003706 intermolecular recognition site; other site 439235003707 dimerization interface [polypeptide binding]; other site 439235003708 Response regulator receiver domain; Region: Response_reg; pfam00072 439235003709 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 439235003710 active site 439235003711 phosphorylation site [posttranslational modification] 439235003712 intermolecular recognition site; other site 439235003713 dimerization interface [polypeptide binding]; other site 439235003714 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 439235003715 GAF domain; Region: GAF; pfam01590 439235003716 PAS domain S-box; Region: sensory_box; TIGR00229 439235003717 PAS domain; Region: PAS; smart00091 439235003718 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 439235003719 dimer interface [polypeptide binding]; other site 439235003720 phosphorylation site [posttranslational modification] 439235003721 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 439235003722 ATP binding site [chemical binding]; other site 439235003723 Mg2+ binding site [ion binding]; other site 439235003724 G-X-G motif; other site 439235003725 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235003726 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 439235003727 active site 439235003728 phosphorylation site [posttranslational modification] 439235003729 intermolecular recognition site; other site 439235003730 dimerization interface [polypeptide binding]; other site 439235003731 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 439235003732 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 439235003733 putative active site [active] 439235003734 putative FMN binding site [chemical binding]; other site 439235003735 putative substrate binding site [chemical binding]; other site 439235003736 putative catalytic residue [active] 439235003737 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235003738 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 439235003739 binding surface 439235003740 TPR motif; other site 439235003741 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235003742 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235003743 Tetratricopeptide repeat; Region: TPR_10; pfam13374 439235003744 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235003745 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 439235003746 binding surface 439235003747 TPR motif; other site 439235003748 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235003749 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235003750 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 439235003751 binding surface 439235003752 TPR motif; other site 439235003753 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235003754 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235003755 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 439235003756 binding surface 439235003757 TPR motif; other site 439235003758 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235003759 Bacterial SH3 domain; Region: SH3_3; pfam08239 439235003760 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 439235003761 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 439235003762 putative acyl-acceptor binding pocket; other site 439235003763 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 439235003764 HAMP domain; Region: HAMP; pfam00672 439235003765 dimerization interface [polypeptide binding]; other site 439235003766 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 439235003767 dimer interface [polypeptide binding]; other site 439235003768 putative CheW interface [polypeptide binding]; other site 439235003769 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 439235003770 dimerization interface [polypeptide binding]; other site 439235003771 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 439235003772 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 439235003773 dimer interface [polypeptide binding]; other site 439235003774 putative CheW interface [polypeptide binding]; other site 439235003775 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 439235003776 PAS domain; Region: PAS_9; pfam13426 439235003777 putative active site [active] 439235003778 heme pocket [chemical binding]; other site 439235003779 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 439235003780 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 439235003781 Walker A motif; other site 439235003782 ATP binding site [chemical binding]; other site 439235003783 Walker B motif; other site 439235003784 arginine finger; other site 439235003785 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235003786 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 439235003787 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 439235003788 catalytic residues [active] 439235003789 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 439235003790 Sodium Bile acid symporter family; Region: SBF; cl17470 439235003791 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 439235003792 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 439235003793 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 439235003794 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 439235003795 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 439235003796 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 439235003797 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 439235003798 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 439235003799 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 439235003800 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 439235003801 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 439235003802 DNA binding residues [nucleotide binding] 439235003803 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 439235003804 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 439235003805 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 439235003806 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 439235003807 Beta-lactamase; Region: Beta-lactamase; pfam00144 439235003808 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235003809 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 439235003810 active site 439235003811 phosphorylation site [posttranslational modification] 439235003812 intermolecular recognition site; other site 439235003813 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235003814 dimerization interface [polypeptide binding]; other site 439235003815 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 439235003816 dimer interface [polypeptide binding]; other site 439235003817 phosphorylation site [posttranslational modification] 439235003818 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 439235003819 ATP binding site [chemical binding]; other site 439235003820 Mg2+ binding site [ion binding]; other site 439235003821 G-X-G motif; other site 439235003822 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235003823 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 439235003824 active site 439235003825 phosphorylation site [posttranslational modification] 439235003826 intermolecular recognition site; other site 439235003827 dimerization interface [polypeptide binding]; other site 439235003828 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 439235003829 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 439235003830 putative active site [active] 439235003831 NAD-dependent deacetylase; Provisional; Region: PRK00481 439235003832 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 439235003833 NAD+ binding site [chemical binding]; other site 439235003834 substrate binding site [chemical binding]; other site 439235003835 Zn binding site [ion binding]; other site 439235003836 Adenosine specific kinase; Region: Adenosine_kin; pfam04008 439235003837 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 439235003838 Methyltransferase domain; Region: Methyltransf_26; pfam13659 439235003839 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cl00038 439235003840 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 439235003841 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 439235003842 P-loop; other site 439235003843 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 439235003844 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 439235003845 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 439235003846 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 439235003847 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 439235003848 G1 box; other site 439235003849 putative GEF interaction site [polypeptide binding]; other site 439235003850 GTP/Mg2+ binding site [chemical binding]; other site 439235003851 Switch I region; other site 439235003852 G2 box; other site 439235003853 G3 box; other site 439235003854 Switch II region; other site 439235003855 G4 box; other site 439235003856 G5 box; other site 439235003857 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 439235003858 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 439235003859 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 439235003860 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 439235003861 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; cl11978 439235003862 META domain; Region: META; pfam03724 439235003863 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 439235003864 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 439235003865 FeS/SAM binding site; other site 439235003866 HemN C-terminal domain; Region: HemN_C; pfam06969 439235003867 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 439235003868 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 439235003869 Sporulation related domain; Region: SPOR; cl10051 439235003870 Protein of unknown function (DUF2920); Region: DUF2920; pfam11144 439235003871 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 439235003872 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 439235003873 dimerization interface [polypeptide binding]; other site 439235003874 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 439235003875 dimer interface [polypeptide binding]; other site 439235003876 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 439235003877 putative CheW interface [polypeptide binding]; other site 439235003878 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 439235003879 dimerization interface [polypeptide binding]; other site 439235003880 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 439235003881 dimer interface [polypeptide binding]; other site 439235003882 putative CheW interface [polypeptide binding]; other site 439235003883 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 439235003884 Peptidase family U32; Region: Peptidase_U32; pfam01136 439235003885 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 439235003886 Scramblase; Region: Scramblase; pfam03803 439235003887 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 439235003888 Predicted transcriptional regulators [Transcription]; Region: COG1695 439235003889 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 439235003890 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 439235003891 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 439235003892 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 439235003893 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 439235003894 thiosulfate reductase PhsA; Provisional; Region: PRK15488 439235003895 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 439235003896 putative [Fe4-S4] binding site [ion binding]; other site 439235003897 putative molybdopterin cofactor binding site [chemical binding]; other site 439235003898 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 439235003899 putative molybdopterin cofactor binding site; other site 439235003900 Heavy-metal resistance; Region: Metal_resist; pfam13801 439235003901 dimer interface [polypeptide binding]; other site 439235003902 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 439235003903 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 439235003904 active site 439235003905 phosphorylation site [posttranslational modification] 439235003906 intermolecular recognition site; other site 439235003907 dimerization interface [polypeptide binding]; other site 439235003908 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 439235003909 DNA binding site [nucleotide binding] 439235003910 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235003911 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 439235003912 dimerization interface [polypeptide binding]; other site 439235003913 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 439235003914 dimer interface [polypeptide binding]; other site 439235003915 phosphorylation site [posttranslational modification] 439235003916 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 439235003917 ATP binding site [chemical binding]; other site 439235003918 Mg2+ binding site [ion binding]; other site 439235003919 G-X-G motif; other site 439235003920 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 439235003921 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 439235003922 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 439235003923 FeS/SAM binding site; other site 439235003924 GTP-binding protein YchF; Reviewed; Region: PRK09601 439235003925 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 439235003926 G1 box; other site 439235003927 GTP/Mg2+ binding site [chemical binding]; other site 439235003928 Switch I region; other site 439235003929 Switch II region; other site 439235003930 G4 box; other site 439235003931 G5 box; other site 439235003932 Protein of unknown function (DUF933); Region: YchF-GTPase_C; pfam06071 439235003933 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 439235003934 Nitroreductase family; Region: Nitroreductase; pfam00881 439235003935 FMN binding site [chemical binding]; other site 439235003936 dimer interface [polypeptide binding]; other site 439235003937 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 439235003938 FMN binding site [chemical binding]; other site 439235003939 dimer interface [polypeptide binding]; other site 439235003940 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 439235003941 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 439235003942 transmembrane helices; other site 439235003943 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 439235003944 dimer interface [polypeptide binding]; other site 439235003945 putative CheW interface [polypeptide binding]; other site 439235003946 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 439235003947 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235003948 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235003949 acyl-activating enzyme (AAE) consensus motif; other site 439235003950 AMP binding site [chemical binding]; other site 439235003951 active site 439235003952 CoA binding site [chemical binding]; other site 439235003953 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 439235003954 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 439235003955 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 439235003956 nucleotide binding site [chemical binding]; other site 439235003957 putative NEF/HSP70 interaction site [polypeptide binding]; other site 439235003958 SBD interface [polypeptide binding]; other site 439235003959 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cl03075 439235003960 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 439235003961 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 439235003962 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439235003963 ligand binding site [chemical binding]; other site 439235003964 PilZ domain; Region: PilZ; cl01260 439235003965 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 439235003966 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 439235003967 CoA binding domain; Region: CoA_binding_2; pfam13380 439235003968 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 439235003969 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 439235003970 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 439235003971 cyclase homology domain; Region: CHD; cd07302 439235003972 nucleotidyl binding site; other site 439235003973 metal binding site [ion binding]; metal-binding site 439235003974 dimer interface [polypeptide binding]; other site 439235003975 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 439235003976 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439235003977 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 439235003978 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 439235003979 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 439235003980 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 439235003981 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439235003982 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 439235003983 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 439235003984 4Fe-4S binding domain; Region: Fer4; pfam00037 439235003985 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235003986 4Fe-4S binding domain; Region: Fer4; pfam00037 439235003987 Uncharacterized conserved protein [Function unknown]; Region: COG2006 439235003988 Domain of unknown function (DUF362); Region: DUF362; pfam04015 439235003989 Ferredoxin [Energy production and conversion]; Region: COG1146 439235003990 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 439235003991 4Fe-4S binding domain; Region: Fer4; pfam00037 439235003992 4Fe-4S binding domain; Region: Fer4; cl02805 439235003993 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235003994 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235003995 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 439235003996 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 439235003997 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 439235003998 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 439235003999 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 439235004000 NAD(P) binding site [chemical binding]; other site 439235004001 catalytic residues [active] 439235004002 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 439235004003 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_family; cd02803 439235004004 active site 439235004005 FMN binding site [chemical binding]; other site 439235004006 substrate binding site [chemical binding]; other site 439235004007 putative catalytic residue [active] 439235004008 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235004009 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235004010 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 439235004011 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 439235004012 acyl-activating enzyme (AAE) consensus motif; other site 439235004013 putative AMP binding site [chemical binding]; other site 439235004014 putative active site [active] 439235004015 putative CoA binding site [chemical binding]; other site 439235004016 (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. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 439235004017 active site 439235004018 catalytic site [active] 439235004019 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 439235004020 active site 2 [active] 439235004021 active site 1 [active] 439235004022 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235004023 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235004024 active site 439235004025 thiolase; Provisional; Region: PRK06158 439235004026 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 439235004027 active site 439235004028 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 439235004029 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 439235004030 DUF35 OB-fold domain; Region: DUF35; pfam01796 439235004031 PAS domain S-box; Region: sensory_box; TIGR00229 439235004032 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 439235004033 putative active site [active] 439235004034 heme pocket [chemical binding]; other site 439235004035 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 439235004036 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 439235004037 putative active site [active] 439235004038 heme pocket [chemical binding]; other site 439235004039 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 439235004040 dimer interface [polypeptide binding]; other site 439235004041 phosphorylation site [posttranslational modification] 439235004042 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 439235004043 ATP binding site [chemical binding]; other site 439235004044 Mg2+ binding site [ion binding]; other site 439235004045 G-X-G motif; other site 439235004046 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235004047 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 439235004048 active site 439235004049 phosphorylation site [posttranslational modification] 439235004050 intermolecular recognition site; other site 439235004051 dimerization interface [polypeptide binding]; other site 439235004052 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 439235004053 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 439235004054 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 439235004055 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 439235004056 dimer interface [polypeptide binding]; other site 439235004057 putative CheW interface [polypeptide binding]; other site 439235004058 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 439235004059 B12 binding site [chemical binding]; other site 439235004060 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 439235004061 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 439235004062 B12 binding site [chemical binding]; other site 439235004063 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 439235004064 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 439235004065 FeS/SAM binding site; other site 439235004066 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 439235004067 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 439235004068 FeS/SAM binding site; other site 439235004069 Uncharacterized conserved protein [Function unknown]; Region: COG1284 439235004070 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 439235004071 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 439235004072 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 439235004073 aspartate kinase; Validated; Region: PRK09181 439235004074 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 439235004075 nucleotide binding site [chemical binding]; other site 439235004076 substrate binding site [chemical binding]; other site 439235004077 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 439235004078 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 439235004079 L-ectoine synthase; Reviewed; Region: ectC; PRK13290 439235004080 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 439235004081 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 439235004082 inhibitor-cofactor binding pocket; inhibition site 439235004083 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235004084 catalytic residue [active] 439235004085 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439235004086 Coenzyme A binding pocket [chemical binding]; other site 439235004087 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 439235004088 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 439235004089 FOG: CBS domain [General function prediction only]; Region: COG0517 439235004090 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439235004091 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439235004092 metal binding site [ion binding]; metal-binding site 439235004093 active site 439235004094 I-site; other site 439235004095 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 439235004096 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 439235004097 PHP-associated; Region: PHP_C; pfam13263 439235004098 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 439235004099 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 439235004100 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 439235004101 FeS/SAM binding site; other site 439235004102 DDE superfamily endonuclease; Region: DDE_5; cl17874 439235004103 Competence protein CoiA-like family; Region: CoiA; cl11541 439235004104 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 439235004105 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 439235004106 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 439235004107 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 439235004108 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 439235004109 G1 box; other site 439235004110 putative GEF interaction site [polypeptide binding]; other site 439235004111 GTP/Mg2+ binding site [chemical binding]; other site 439235004112 Switch I region; other site 439235004113 G2 box; other site 439235004114 G3 box; other site 439235004115 Switch II region; other site 439235004116 G4 box; other site 439235004117 G5 box; other site 439235004118 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 439235004119 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 439235004120 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 439235004121 DNA topoisomerase I; Validated; Region: PRK06599 439235004122 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 439235004123 active site 439235004124 interdomain interaction site; other site 439235004125 putative metal-binding site [ion binding]; other site 439235004126 nucleotide binding site [chemical binding]; other site 439235004127 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 439235004128 domain I; other site 439235004129 DNA binding groove [nucleotide binding] 439235004130 phosphate binding site [ion binding]; other site 439235004131 domain II; other site 439235004132 domain III; other site 439235004133 nucleotide binding site [chemical binding]; other site 439235004134 catalytic site [active] 439235004135 domain IV; other site 439235004136 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 439235004137 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 439235004138 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 439235004139 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 439235004140 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 439235004141 DNA protecting protein DprA; Region: dprA; TIGR00732 439235004142 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 439235004143 Protein export membrane protein; Region: SecD_SecF; pfam02355 439235004144 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 439235004145 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 439235004146 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 439235004147 Preprotein translocase subunit; Region: YajC; pfam02699 439235004148 adenylosuccinate lyase; Provisional; Region: PRK07492 439235004149 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 439235004150 tetramer interface [polypeptide binding]; other site 439235004151 active site 439235004152 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 439235004153 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 439235004154 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 439235004155 homodimer interface [polypeptide binding]; other site 439235004156 oligonucleotide binding site [chemical binding]; other site 439235004157 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 439235004158 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 439235004159 HIGH motif; other site 439235004160 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 439235004161 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 439235004162 active site 439235004163 KMSKS motif; other site 439235004164 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 439235004165 tRNA binding surface [nucleotide binding]; other site 439235004166 Lipopolysaccharide-assembly; Region: LptE; pfam04390 439235004167 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 439235004168 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 439235004169 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 439235004170 active site 439235004171 metal binding site [ion binding]; metal-binding site 439235004172 TIR domain; Region: TIR_2; pfam13676 439235004173 SIR2-like domain; Region: SIR2_2; pfam13289 439235004174 epoxyqueuosine reductase; Region: TIGR00276 439235004175 HEAT repeats; Region: HEAT_2; pfam13646 439235004176 Ferredoxin [Energy production and conversion]; Region: COG1146 439235004177 4Fe-4S binding domain; Region: Fer4; pfam00037 439235004178 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 439235004179 Na2 binding site [ion binding]; other site 439235004180 putative substrate binding site 1 [chemical binding]; other site 439235004181 Na binding site 1 [ion binding]; other site 439235004182 putative substrate binding site 2 [chemical binding]; other site 439235004183 Cupin domain; Region: Cupin_2; cl17218 439235004184 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 439235004185 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 439235004186 Zn binding site [ion binding]; other site 439235004187 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 439235004188 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 439235004189 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 439235004190 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 439235004191 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 439235004192 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 439235004193 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 439235004194 DctM-like transporters; Region: DctM; pfam06808 439235004195 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 439235004196 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 439235004197 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 439235004198 dimerization interface [polypeptide binding]; other site 439235004199 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 439235004200 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 439235004201 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 439235004202 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 439235004203 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 439235004204 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 439235004205 dimer interface [polypeptide binding]; other site 439235004206 active site residues [active] 439235004207 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 439235004208 legume lectins; Region: lectin_L-type; cd01951 439235004209 homotetramer interaction site [polypeptide binding]; other site 439235004210 homodimer interaction site [polypeptide binding]; other site 439235004211 carbohydrate binding site [chemical binding]; other site 439235004212 metal binding site [ion binding]; metal-binding site 439235004213 Domain of unknown function DUF11; Region: DUF11; pfam01345 439235004214 Domain of unknown function DUF11; Region: DUF11; pfam01345 439235004215 Domain of unknown function DUF11; Region: DUF11; pfam01345 439235004216 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 439235004217 PAS domain S-box; Region: sensory_box; TIGR00229 439235004218 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 439235004219 putative active site [active] 439235004220 heme pocket [chemical binding]; other site 439235004221 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 439235004222 GAF domain; Region: GAF; cl17456 439235004223 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 439235004224 ATP binding site [chemical binding]; other site 439235004225 Mg2+ binding site [ion binding]; other site 439235004226 G-X-G motif; other site 439235004227 Response regulator receiver domain; Region: Response_reg; pfam00072 439235004228 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 439235004229 active site 439235004230 phosphorylation site [posttranslational modification] 439235004231 intermolecular recognition site; other site 439235004232 dimerization interface [polypeptide binding]; other site 439235004233 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 439235004234 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235004235 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 439235004236 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 439235004237 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 439235004238 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 439235004239 benzoate transporter; Region: benE; TIGR00843 439235004240 von Willebrand factor type A domain; Region: VWA_2; pfam13519 439235004241 metal ion-dependent adhesion site (MIDAS); other site 439235004242 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cl03181 439235004243 Propeptide_C25; Region: Propeptide_C25; pfam08126 439235004244 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 439235004245 binding surface 439235004246 TPR motif; other site 439235004247 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 439235004248 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 439235004249 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 439235004250 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 439235004251 glutamine binding [chemical binding]; other site 439235004252 catalytic triad [active] 439235004253 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 439235004254 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 439235004255 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 439235004256 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 439235004257 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 439235004258 substrate-cofactor binding pocket; other site 439235004259 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235004260 homodimer interface [polypeptide binding]; other site 439235004261 catalytic residue [active] 439235004262 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 439235004263 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439235004264 Coenzyme A binding pocket [chemical binding]; other site 439235004265 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 439235004266 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 439235004267 tandem repeat interface [polypeptide binding]; other site 439235004268 oligomer interface [polypeptide binding]; other site 439235004269 active site residues [active] 439235004270 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 439235004271 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 439235004272 motif II; other site 439235004273 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 439235004274 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 439235004275 putative GTP cyclohydrolase; Provisional; Region: PRK13674 439235004276 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 439235004277 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 439235004278 Ligand Binding Site [chemical binding]; other site 439235004279 TIGR00269 family protein; Region: TIGR00269 439235004280 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 439235004281 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 439235004282 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 439235004283 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 439235004284 3-isopropylmalate dehydrogenase; Provisional; Region: PRK03437 439235004285 tartrate dehydrogenase; Region: TTC; TIGR02089 439235004286 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 439235004287 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 439235004288 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 439235004289 Glycoprotease family; Region: Peptidase_M22; pfam00814 439235004290 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 439235004291 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 439235004292 Found in ATP-dependent protease La (LON); Region: LON; smart00464 439235004293 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 439235004294 Walker A motif; other site 439235004295 ATP binding site [chemical binding]; other site 439235004296 Walker B motif; other site 439235004297 arginine finger; other site 439235004298 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 439235004299 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 439235004300 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 439235004301 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 439235004302 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 439235004303 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 439235004304 active site 439235004305 dimerization interface [polypeptide binding]; other site 439235004306 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235004307 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 439235004308 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235004309 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 439235004310 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235004311 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235004312 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235004313 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 439235004314 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235004315 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235004316 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235004317 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235004318 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 439235004319 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235004320 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 439235004321 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 439235004322 active site 439235004323 phosphorylation site [posttranslational modification] 439235004324 intermolecular recognition site; other site 439235004325 dimerization interface [polypeptide binding]; other site 439235004326 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 439235004327 Walker A motif; other site 439235004328 ATP binding site [chemical binding]; other site 439235004329 Walker B motif; other site 439235004330 arginine finger; other site 439235004331 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235004332 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 439235004333 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 439235004334 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 439235004335 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 439235004336 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 439235004337 EamA-like transporter family; Region: EamA; pfam00892 439235004338 EamA-like transporter family; Region: EamA; pfam00892 439235004339 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439235004340 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 439235004341 substrate binding pocket [chemical binding]; other site 439235004342 membrane-bound complex binding site; other site 439235004343 hinge residues; other site 439235004344 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 439235004345 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 439235004346 dimer interface [polypeptide binding]; other site 439235004347 conserved gate region; other site 439235004348 putative PBP binding loops; other site 439235004349 ABC-ATPase subunit interface; other site 439235004350 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 439235004351 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 439235004352 Walker A/P-loop; other site 439235004353 ATP binding site [chemical binding]; other site 439235004354 Q-loop/lid; other site 439235004355 ABC transporter signature motif; other site 439235004356 Walker B; other site 439235004357 D-loop; other site 439235004358 H-loop/switch region; other site 439235004359 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 439235004360 cyclase homology domain; Region: CHD; cd07302 439235004361 nucleotidyl binding site; other site 439235004362 metal binding site [ion binding]; metal-binding site 439235004363 dimer interface [polypeptide binding]; other site 439235004364 Hemerythrin; Region: Hemerythrin; cd12107 439235004365 Fe binding site [ion binding]; other site 439235004366 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 439235004367 PLD-like domain; Region: PLDc_2; pfam13091 439235004368 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 439235004369 putative active site [active] 439235004370 catalytic site [active] 439235004371 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 439235004372 PLD-like domain; Region: PLDc_2; pfam13091 439235004373 putative active site [active] 439235004374 catalytic site [active] 439235004375 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 439235004376 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 439235004377 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 439235004378 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 439235004379 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 439235004380 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 439235004381 Walker A/P-loop; other site 439235004382 ATP binding site [chemical binding]; other site 439235004383 Q-loop/lid; other site 439235004384 ABC transporter signature motif; other site 439235004385 Walker B; other site 439235004386 D-loop; other site 439235004387 H-loop/switch region; other site 439235004388 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 439235004389 ResB-like family; Region: ResB; pfam05140 439235004390 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 439235004391 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 439235004392 thiosulfate reductase PhsA; Provisional; Region: PRK15488 439235004393 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 439235004394 molybdopterin cofactor binding site; other site 439235004395 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cd02775 439235004396 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 439235004397 4Fe-4S binding domain; Region: Fer4; cl02805 439235004398 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 439235004399 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 439235004400 transmembrane helices; other site 439235004401 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 439235004402 TrkA-C domain; Region: TrkA_C; pfam02080 439235004403 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 439235004404 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 439235004405 Response regulator receiver domain; Region: Response_reg; pfam00072 439235004406 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 439235004407 active site 439235004408 phosphorylation site [posttranslational modification] 439235004409 intermolecular recognition site; other site 439235004410 dimerization interface [polypeptide binding]; other site 439235004411 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235004412 HAMP domain; Region: HAMP; pfam00672 439235004413 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 439235004414 dimer interface [polypeptide binding]; other site 439235004415 phosphorylation site [posttranslational modification] 439235004416 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 439235004417 ATP binding site [chemical binding]; other site 439235004418 Mg2+ binding site [ion binding]; other site 439235004419 G-X-G motif; other site 439235004420 Divergent AAA domain; Region: AAA_4; pfam04326 439235004421 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 439235004422 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 439235004423 dimerization interface [polypeptide binding]; other site 439235004424 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 439235004425 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 439235004426 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 439235004427 GAF domain; Region: GAF_3; pfam13492 439235004428 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 439235004429 cyclase homology domain; Region: CHD; cd07302 439235004430 nucleotidyl binding site; other site 439235004431 metal binding site [ion binding]; metal-binding site 439235004432 dimer interface [polypeptide binding]; other site 439235004433 PAS domain S-box; Region: sensory_box; TIGR00229 439235004434 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 439235004435 putative active site [active] 439235004436 heme pocket [chemical binding]; other site 439235004437 PAS domain S-box; Region: sensory_box; TIGR00229 439235004438 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 439235004439 putative active site [active] 439235004440 heme pocket [chemical binding]; other site 439235004441 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235004442 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 439235004443 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235004444 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 439235004445 active site 439235004446 phosphorylation site [posttranslational modification] 439235004447 intermolecular recognition site; other site 439235004448 dimerization interface [polypeptide binding]; other site 439235004449 Fatty acyltransferase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: fatty_acyltransferase_like; cd01846 439235004450 active site 439235004451 catalytic triad [active] 439235004452 oxyanion hole [active] 439235004453 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 439235004454 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 439235004455 putative active site [active] 439235004456 heme pocket [chemical binding]; other site 439235004457 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 439235004458 putative active site [active] 439235004459 heme pocket [chemical binding]; other site 439235004460 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 439235004461 Walker A motif; other site 439235004462 ATP binding site [chemical binding]; other site 439235004463 Walker B motif; other site 439235004464 arginine finger; other site 439235004465 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 439235004466 GAF domain; Region: GAF_3; pfam13492 439235004467 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 439235004468 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 439235004469 Walker A motif; other site 439235004470 ATP binding site [chemical binding]; other site 439235004471 Walker B motif; other site 439235004472 arginine finger; other site 439235004473 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 439235004474 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 439235004475 substrate binding site [chemical binding]; other site 439235004476 oxyanion hole (OAH) forming residues; other site 439235004477 trimer interface [polypeptide binding]; other site 439235004478 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 439235004479 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 439235004480 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 439235004481 substrate binding site [chemical binding]; other site 439235004482 oxyanion hole (OAH) forming residues; other site 439235004483 trimer interface [polypeptide binding]; other site 439235004484 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 439235004485 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 439235004486 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235004487 active site 439235004488 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 439235004489 Transposase IS200 like; Region: Y1_Tnp; pfam01797 439235004490 Transposase [DNA replication, recombination, and repair]; Region: COG5421 439235004491 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 439235004492 non-specific DNA interactions [nucleotide binding]; other site 439235004493 DNA binding site [nucleotide binding] 439235004494 sequence specific DNA binding site [nucleotide binding]; other site 439235004495 putative cAMP binding site [chemical binding]; other site 439235004496 Eukaryotic and archaeal DNA primase small subunit; Region: DNA_primase_S; pfam01896 439235004497 nucleotide binding site [chemical binding]; other site 439235004498 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 439235004499 imidazole glycerol phosphate synthase subunit HisF; Provisional; Region: PRK01033 439235004500 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 439235004501 substrate binding site [chemical binding]; other site 439235004502 glutamase interaction surface [polypeptide binding]; other site 439235004503 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 439235004504 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 439235004505 putative active site [active] 439235004506 oxyanion strand; other site 439235004507 catalytic triad [active] 439235004508 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 439235004509 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_III; cd01996 439235004510 Ligand Binding Site [chemical binding]; other site 439235004511 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 439235004512 Transposase domain (DUF772); Region: DUF772; pfam05598 439235004513 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 439235004514 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 439235004515 Transposase IS200 like; Region: Y1_Tnp; pfam01797 439235004516 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 439235004517 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439235004518 LicD family; Region: LicD; pfam04991 439235004519 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 439235004520 Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP); Region: HEPD; cd08182 439235004521 putative active site [active] 439235004522 metal binding site [ion binding]; metal-binding site 439235004523 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 439235004524 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 439235004525 PYR/PP interface [polypeptide binding]; other site 439235004526 dimer interface [polypeptide binding]; other site 439235004527 TPP binding site [chemical binding]; other site 439235004528 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 439235004529 TPP-binding site; other site 439235004530 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 439235004531 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 439235004532 active site 439235004533 nucleotide binding site [chemical binding]; other site 439235004534 HIGH motif; other site 439235004535 KMSKS motif; other site 439235004536 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 439235004537 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 439235004538 tetramer interface [polypeptide binding]; other site 439235004539 active site 439235004540 Mg2+/Mn2+ binding site [ion binding]; other site 439235004541 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 439235004542 colanic acid biosynthesis glycosyl transferase WcaA; Region: WcaA; TIGR04017 439235004543 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 439235004544 active site 439235004545 Uncharacterized conserved protein [Function unknown]; Region: COG2006 439235004546 Domain of unknown function (DUF362); Region: DUF362; pfam04015 439235004547 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 439235004548 Prenyltransferase-like; Region: Prenyltrans_1; pfam13243 439235004549 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 439235004550 Transposase; Region: DDE_Tnp_ISL3; pfam01610 439235004551 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 439235004552 putative active site [active] 439235004553 Bacterial sugar transferase; Region: Bac_transf; pfam02397 439235004554 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 439235004555 active site 439235004556 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 439235004557 homodimer interface [polypeptide binding]; other site 439235004558 putative glycosyl transferase; Provisional; Region: PRK10307 439235004559 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 439235004560 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 439235004561 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 439235004562 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 439235004563 putative NAD(P) binding site [chemical binding]; other site 439235004564 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 439235004565 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 439235004566 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439235004567 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 439235004568 NAD(P) binding site [chemical binding]; other site 439235004569 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 439235004570 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 439235004571 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 439235004572 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 439235004573 O-Antigen ligase; Region: Wzy_C; cl04850 439235004574 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 439235004575 non-specific DNA binding site [nucleotide binding]; other site 439235004576 salt bridge; other site 439235004577 sequence-specific DNA binding site [nucleotide binding]; other site 439235004578 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 439235004579 Domain of unknown function (DUF932); Region: DUF932; cl12129 439235004580 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 439235004581 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 439235004582 salt bridge; other site 439235004583 non-specific DNA binding site [nucleotide binding]; other site 439235004584 sequence-specific DNA binding site [nucleotide binding]; other site 439235004585 Helix-turn-helix domain; Region: HTH_17; cl17695 439235004586 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 439235004587 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 439235004588 Int/Topo IB signature motif; other site 439235004589 Preprotein translocase SecG subunit; Region: SecG; pfam03840 439235004590 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 439235004591 triosephosphate isomerase; Provisional; Region: PRK14565 439235004592 substrate binding site [chemical binding]; other site 439235004593 dimer interface [polypeptide binding]; other site 439235004594 catalytic triad [active] 439235004595 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 439235004596 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 439235004597 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 439235004598 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 439235004599 active pocket/dimerization site; other site 439235004600 active site 439235004601 phosphorylation site [posttranslational modification] 439235004602 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 439235004603 shikimate kinase; Reviewed; Region: aroK; PRK00131 439235004604 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 439235004605 active site 439235004606 phosphorylation site [posttranslational modification] 439235004607 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 439235004608 30S subunit binding site; other site 439235004609 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 439235004610 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 439235004611 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 439235004612 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 439235004613 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 439235004614 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 439235004615 Walker A/P-loop; other site 439235004616 ATP binding site [chemical binding]; other site 439235004617 Q-loop/lid; other site 439235004618 ABC transporter signature motif; other site 439235004619 Walker B; other site 439235004620 D-loop; other site 439235004621 H-loop/switch region; other site 439235004622 OstA-like protein; Region: OstA; pfam03968 439235004623 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 439235004624 OstA-like protein; Region: OstA; cl00844 439235004625 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 439235004626 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 439235004627 motif II; other site 439235004628 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 439235004629 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 439235004630 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 439235004631 Peptidase family M23; Region: Peptidase_M23; pfam01551 439235004632 Domain of unknown function DUF39; Region: DUF39; pfam01837 439235004633 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 439235004634 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 439235004635 Catalytic site [active] 439235004636 dihydroorotase; Validated; Region: pyrC; PRK09357 439235004637 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 439235004638 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 439235004639 active site 439235004640 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 439235004641 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 439235004642 active site 439235004643 phosphorylation site [posttranslational modification] 439235004644 intermolecular recognition site; other site 439235004645 dimerization interface [polypeptide binding]; other site 439235004646 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 439235004647 Walker A motif; other site 439235004648 ATP binding site [chemical binding]; other site 439235004649 Walker B motif; other site 439235004650 arginine finger; other site 439235004651 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235004652 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 439235004653 TPR repeat; Region: TPR_11; pfam13414 439235004654 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 439235004655 binding surface 439235004656 TPR motif; other site 439235004657 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 439235004658 binding surface 439235004659 TPR motif; other site 439235004660 TPR repeat; Region: TPR_11; pfam13414 439235004661 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]; Region: RAD55; COG0467 439235004662 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 439235004663 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 439235004664 non-specific DNA binding site [nucleotide binding]; other site 439235004665 salt bridge; other site 439235004666 sequence-specific DNA binding site [nucleotide binding]; other site 439235004667 Cupin domain; Region: Cupin_2; pfam07883 439235004668 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 439235004669 B12 binding site [chemical binding]; other site 439235004670 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 439235004671 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 439235004672 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 439235004673 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 439235004674 Walker A/P-loop; other site 439235004675 ATP binding site [chemical binding]; other site 439235004676 Q-loop/lid; other site 439235004677 ABC transporter signature motif; other site 439235004678 Walker B; other site 439235004679 D-loop; other site 439235004680 H-loop/switch region; other site 439235004681 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 439235004682 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 439235004683 dimer interface [polypeptide binding]; other site 439235004684 conserved gate region; other site 439235004685 putative PBP binding loops; other site 439235004686 ABC-ATPase subunit interface; other site 439235004687 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 439235004688 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 439235004689 NMT1-like family; Region: NMT1_2; pfam13379 439235004690 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 439235004691 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 439235004692 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 439235004693 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 439235004694 putative acyl-acceptor binding pocket; other site 439235004695 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 439235004696 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 439235004697 putative NAD(P) binding site [chemical binding]; other site 439235004698 active site 439235004699 putative substrate binding site [chemical binding]; other site 439235004700 Peptidase C1A subfamily (MEROPS database nomenclature); composed of cysteine peptidases (CPs) similar to papain, including the mammalian CPs (cathepsins B, C, F, H, L, K, O, S, V, X and W). Papain is an endopeptidase with specific substrate preferences; Region: Peptidase_C1A; cd02248 439235004701 active site 439235004702 S2 subsite; other site 439235004703 Domain of unknown function DUF11; Region: DUF11; cl17728 439235004704 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4719 439235004705 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 439235004706 conserved repeat domain; Region: B_ant_repeat; TIGR01451 439235004707 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 439235004708 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 439235004709 putative acyl-acceptor binding pocket; other site 439235004710 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 439235004711 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 439235004712 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 439235004713 active site 439235004714 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235004715 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235004716 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 439235004717 classical (c) SDRs; Region: SDR_c; cd05233 439235004718 NAD(P) binding site [chemical binding]; other site 439235004719 active site 439235004720 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 439235004721 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 439235004722 PYR/PP interface [polypeptide binding]; other site 439235004723 dimer interface [polypeptide binding]; other site 439235004724 TPP binding site [chemical binding]; other site 439235004725 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 439235004726 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 439235004727 TPP-binding site; other site 439235004728 dimer interface [polypeptide binding]; other site 439235004729 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 439235004730 Sodium Bile acid symporter family; Region: SBF; pfam01758 439235004731 short chain dehydrogenase; Provisional; Region: PRK06181 439235004732 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439235004733 NAD(P) binding site [chemical binding]; other site 439235004734 active site 439235004735 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 439235004736 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 439235004737 PYR/PP interface [polypeptide binding]; other site 439235004738 dimer interface [polypeptide binding]; other site 439235004739 TPP binding site [chemical binding]; other site 439235004740 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 439235004741 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; cl01629 439235004742 TPP-binding site [chemical binding]; other site 439235004743 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 439235004744 putative substrate translocation pore; other site 439235004745 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 439235004746 chorismate binding enzyme; Region: Chorismate_bind; cl10555 439235004747 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 439235004748 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 439235004749 dimer interface [polypeptide binding]; other site 439235004750 tetramer interface [polypeptide binding]; other site 439235004751 PYR/PP interface [polypeptide binding]; other site 439235004752 TPP binding site [chemical binding]; other site 439235004753 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 439235004754 TPP-binding site; other site 439235004755 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 439235004756 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 439235004757 substrate binding site [chemical binding]; other site 439235004758 oxyanion hole (OAH) forming residues; other site 439235004759 trimer interface [polypeptide binding]; other site 439235004760 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; cl15762 439235004761 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 439235004762 UbiA prenyltransferase family; Region: UbiA; pfam01040 439235004763 O-succinylbenzoate synthase; Provisional; Region: PRK05105 439235004764 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 439235004765 active site 439235004766 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 439235004767 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 439235004768 acyl-activating enzyme (AAE) consensus motif; other site 439235004769 putative AMP binding site [chemical binding]; other site 439235004770 putative active site [active] 439235004771 putative CoA binding site [chemical binding]; other site 439235004772 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 439235004773 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235004774 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235004775 active site 439235004776 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 439235004777 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 439235004778 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 439235004779 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 439235004780 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 439235004781 catalytic residue [active] 439235004782 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 439235004783 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 439235004784 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; pfam02675 439235004785 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 439235004786 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 439235004787 Walker A motif; other site 439235004788 ATP binding site [chemical binding]; other site 439235004789 Walker B motif; other site 439235004790 arginine finger; other site 439235004791 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235004792 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 439235004793 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 439235004794 RNA binding surface [nucleotide binding]; other site 439235004795 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 439235004796 active site 439235004797 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 439235004798 heterotetramer interface [polypeptide binding]; other site 439235004799 active site pocket [active] 439235004800 cleavage site 439235004801 hypothetical protein; Validated; Region: PRK08238 439235004802 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 439235004803 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 439235004804 FAD binding domain; Region: FAD_binding_4; pfam01565 439235004805 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 439235004806 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 439235004807 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235004808 putative active site [active] 439235004809 heme pocket [chemical binding]; other site 439235004810 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 439235004811 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235004812 putative active site [active] 439235004813 heme pocket [chemical binding]; other site 439235004814 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 439235004815 putative active site [active] 439235004816 heme pocket [chemical binding]; other site 439235004817 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 439235004818 dimer interface [polypeptide binding]; other site 439235004819 phosphorylation site [posttranslational modification] 439235004820 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 439235004821 ATP binding site [chemical binding]; other site 439235004822 Mg2+ binding site [ion binding]; other site 439235004823 G-X-G motif; other site 439235004824 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235004825 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 439235004826 active site 439235004827 phosphorylation site [posttranslational modification] 439235004828 intermolecular recognition site; other site 439235004829 dimerization interface [polypeptide binding]; other site 439235004830 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 439235004831 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 439235004832 active site 439235004833 phosphorylation site [posttranslational modification] 439235004834 intermolecular recognition site; other site 439235004835 dimerization interface [polypeptide binding]; other site 439235004836 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 439235004837 DNA binding site [nucleotide binding] 439235004838 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 439235004839 dimerization interface [polypeptide binding]; other site 439235004840 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 439235004841 PAS domain; Region: PAS; smart00091 439235004842 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 439235004843 dimer interface [polypeptide binding]; other site 439235004844 phosphorylation site [posttranslational modification] 439235004845 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 439235004846 ATP binding site [chemical binding]; other site 439235004847 Mg2+ binding site [ion binding]; other site 439235004848 G-X-G motif; other site 439235004849 PBP superfamily domain; Region: PBP_like_2; cl17296 439235004850 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 439235004851 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 439235004852 dimer interface [polypeptide binding]; other site 439235004853 conserved gate region; other site 439235004854 ABC-ATPase subunit interface; other site 439235004855 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 439235004856 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 439235004857 dimer interface [polypeptide binding]; other site 439235004858 conserved gate region; other site 439235004859 putative PBP binding loops; other site 439235004860 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 439235004861 ABC-ATPase subunit interface; other site 439235004862 phosphate transporter ATP-binding protein; Provisional; Region: PRK14242 439235004863 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 439235004864 Walker A/P-loop; other site 439235004865 ATP binding site [chemical binding]; other site 439235004866 Q-loop/lid; other site 439235004867 ABC transporter signature motif; other site 439235004868 Walker B; other site 439235004869 D-loop; other site 439235004870 H-loop/switch region; other site 439235004871 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 439235004872 PhoU domain; Region: PhoU; pfam01895 439235004873 PhoU domain; Region: PhoU; pfam01895 439235004874 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 439235004875 active site 439235004876 dimer interface [polypeptide binding]; other site 439235004877 metal binding site [ion binding]; metal-binding site 439235004878 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 439235004879 substrate binding site [chemical binding]; other site 439235004880 active site 439235004881 catalytic residues [active] 439235004882 heterodimer interface [polypeptide binding]; other site 439235004883 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 439235004884 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 439235004885 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235004886 catalytic residue [active] 439235004887 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 439235004888 active site 439235004889 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 439235004890 active site 439235004891 ribulose/triose binding site [chemical binding]; other site 439235004892 phosphate binding site [ion binding]; other site 439235004893 substrate (anthranilate) binding pocket [chemical binding]; other site 439235004894 product (indole) binding pocket [chemical binding]; other site 439235004895 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 439235004896 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 439235004897 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 439235004898 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 439235004899 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 439235004900 glutamine binding [chemical binding]; other site 439235004901 catalytic triad [active] 439235004902 anthranilate synthase component I; Provisional; Region: PRK13565 439235004903 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 439235004904 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 439235004905 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 439235004906 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 439235004907 PAS domain S-box; Region: sensory_box; TIGR00229 439235004908 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 439235004909 putative active site [active] 439235004910 heme pocket [chemical binding]; other site 439235004911 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 439235004912 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235004913 putative active site [active] 439235004914 heme pocket [chemical binding]; other site 439235004915 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 439235004916 dimer interface [polypeptide binding]; other site 439235004917 phosphorylation site [posttranslational modification] 439235004918 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 439235004919 ATP binding site [chemical binding]; other site 439235004920 Mg2+ binding site [ion binding]; other site 439235004921 G-X-G motif; other site 439235004922 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235004923 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 439235004924 active site 439235004925 phosphorylation site [posttranslational modification] 439235004926 intermolecular recognition site; other site 439235004927 dimerization interface [polypeptide binding]; other site 439235004928 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 439235004929 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 439235004930 HlyD family secretion protein; Region: HlyD_3; pfam13437 439235004931 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 439235004932 Methyltransferase domain; Region: Methyltransf_31; pfam13847 439235004933 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 439235004934 S-adenosylmethionine binding site [chemical binding]; other site 439235004935 Potential DNA-binding domain; Region: zf-C3Hc3H; pfam13891 439235004936 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 439235004937 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 439235004938 putative acyl-acceptor binding pocket; other site 439235004939 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 439235004940 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 439235004941 putative NAD(P) binding site [chemical binding]; other site 439235004942 active site 439235004943 putative substrate binding site [chemical binding]; other site 439235004944 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 439235004945 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 439235004946 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 439235004947 Walker A motif; other site 439235004948 ATP binding site [chemical binding]; other site 439235004949 TrkA-N domain; Region: TrkA_N; pfam02254 439235004950 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 439235004951 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 439235004952 S-adenosylmethionine binding site [chemical binding]; other site 439235004953 Methyltransferase domain; Region: Methyltransf_23; pfam13489 439235004954 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 439235004955 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 439235004956 active site 439235004957 metal binding site [ion binding]; metal-binding site 439235004958 trigger factor; Provisional; Region: tig; PRK01490 439235004959 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 439235004960 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 439235004961 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 439235004962 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 439235004963 oligomer interface [polypeptide binding]; other site 439235004964 active site residues [active] 439235004965 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 439235004966 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 439235004967 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 439235004968 Walker A motif; other site 439235004969 ATP binding site [chemical binding]; other site 439235004970 Walker B motif; other site 439235004971 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 439235004972 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 439235004973 Found in ATP-dependent protease La (LON); Region: LON; smart00464 439235004974 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 439235004975 Walker A motif; other site 439235004976 ATP binding site [chemical binding]; other site 439235004977 Walker B motif; other site 439235004978 arginine finger; other site 439235004979 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 439235004980 Winged helix-turn helix; Region: HTH_29; pfam13551 439235004981 Helix-turn-helix domain; Region: HTH_28; pfam13518 439235004982 Homeodomain-like domain; Region: HTH_32; pfam13565 439235004983 Winged helix-turn helix; Region: HTH_33; pfam13592 439235004984 DDE superfamily endonuclease; Region: DDE_3; pfam13358 439235004985 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 439235004986 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 439235004987 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 439235004988 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 439235004989 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 439235004990 TAP-like protein; Region: Abhydrolase_4; pfam08386 439235004991 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 439235004992 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 439235004993 NAD(P) binding site [chemical binding]; other site 439235004994 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 439235004995 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 439235004996 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235004997 active site 439235004998 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 439235004999 Predicted acetyltransferase [General function prediction only]; Region: COG3153 439235005000 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 439235005001 Peptidase family C69; Region: Peptidase_C69; cl17793 439235005002 Rhodanese-like domain; Region: Rhodanese; pfam00581 439235005003 active site residue [active] 439235005004 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 439235005005 active site residue [active] 439235005006 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 439235005007 beta propeller repeat, Methanosarcina surface protein type; Region: beta_prop_Msarc; TIGR04275 439235005008 Right handed beta helix region; Region: Beta_helix; pfam13229 439235005009 Right handed beta helix region; Region: Beta_helix; pfam13229 439235005010 Right handed beta helix region; Region: Beta_helix; pfam13229 439235005011 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 439235005012 Interdomain contacts; other site 439235005013 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 439235005014 Interdomain contacts; other site 439235005015 Cytokine receptor motif; other site 439235005016 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 439235005017 Interdomain contacts; other site 439235005018 Cytokine receptor motif; other site 439235005019 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 439235005020 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 439235005021 protein-splicing catalytic site; other site 439235005022 thioester formation/cholesterol transfer; other site 439235005023 Pretoxin HINT domain; Region: PT-HINT; pfam07591 439235005024 SnoaL-like domain; Region: SnoaL_2; pfam12680 439235005025 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 439235005026 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 439235005027 Predicted hydrocarbon binding protein (contains V4R domain) [General function prediction only]; Region: COG1719 439235005028 V4R domain; Region: V4R; pfam02830 439235005029 Transcriptional regulators [Transcription]; Region: FadR; COG2186 439235005030 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439235005031 DNA-binding site [nucleotide binding]; DNA binding site 439235005032 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235005033 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 439235005034 putative active site [active] 439235005035 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 439235005036 dimer interface [polypeptide binding]; other site 439235005037 phosphorylation site [posttranslational modification] 439235005038 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 439235005039 ATP binding site [chemical binding]; other site 439235005040 Mg2+ binding site [ion binding]; other site 439235005041 G-X-G motif; other site 439235005042 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 439235005043 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 439235005044 putative active site [active] 439235005045 metal binding site [ion binding]; metal-binding site 439235005046 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 439235005047 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 439235005048 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 439235005049 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 439235005050 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 439235005051 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 439235005052 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 439235005053 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 439235005054 substrate binding site; other site 439235005055 tetramer interface; other site 439235005056 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 439235005057 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 439235005058 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 439235005059 Substrate binding site; other site 439235005060 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 439235005061 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 439235005062 active site 439235005063 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 439235005064 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 439235005065 putative acyl-acceptor binding pocket; other site 439235005066 This putative domain contains a quite highly conserved sequence of CGGC in its central region; Region: CGGC; smart01078 439235005067 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 439235005068 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 439235005069 FeS/SAM binding site; other site 439235005070 Methyltransferase domain; Region: Methyltransf_23; pfam13489 439235005071 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 439235005072 S-adenosylmethionine binding site [chemical binding]; other site 439235005073 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 439235005074 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 439235005075 dimer interface [polypeptide binding]; other site 439235005076 ssDNA binding site [nucleotide binding]; other site 439235005077 tetramer (dimer of dimers) interface [polypeptide binding]; other site 439235005078 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 439235005079 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439235005080 substrate binding pocket [chemical binding]; other site 439235005081 membrane-bound complex binding site; other site 439235005082 hinge residues; other site 439235005083 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 439235005084 dimer interface [polypeptide binding]; other site 439235005085 phosphorylation site [posttranslational modification] 439235005086 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 439235005087 ATP binding site [chemical binding]; other site 439235005088 Mg2+ binding site [ion binding]; other site 439235005089 G-X-G motif; other site 439235005090 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235005091 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 439235005092 active site 439235005093 phosphorylation site [posttranslational modification] 439235005094 intermolecular recognition site; other site 439235005095 dimerization interface [polypeptide binding]; other site 439235005096 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 439235005097 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235005098 putative active site [active] 439235005099 heme pocket [chemical binding]; other site 439235005100 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 439235005101 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 439235005102 putative active site [active] 439235005103 heme pocket [chemical binding]; other site 439235005104 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 439235005105 dimer interface [polypeptide binding]; other site 439235005106 phosphorylation site [posttranslational modification] 439235005107 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 439235005108 ATP binding site [chemical binding]; other site 439235005109 Mg2+ binding site [ion binding]; other site 439235005110 G-X-G motif; other site 439235005111 Response regulator receiver domain; Region: Response_reg; pfam00072 439235005112 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 439235005113 active site 439235005114 phosphorylation site [posttranslational modification] 439235005115 intermolecular recognition site; other site 439235005116 dimerization interface [polypeptide binding]; other site 439235005117 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 439235005118 PBP superfamily domain; Region: PBP_like_2; pfam12849 439235005119 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 439235005120 dimer interface [polypeptide binding]; other site 439235005121 conserved gate region; other site 439235005122 putative PBP binding loops; other site 439235005123 ABC-ATPase subunit interface; other site 439235005124 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 439235005125 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235005126 Walker A/P-loop; other site 439235005127 ATP binding site [chemical binding]; other site 439235005128 Q-loop/lid; other site 439235005129 ABC transporter signature motif; other site 439235005130 Walker B; other site 439235005131 D-loop; other site 439235005132 H-loop/switch region; other site 439235005133 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 439235005134 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 439235005135 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 439235005136 catalytic residue [active] 439235005137 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 439235005138 metal ion-dependent adhesion site (MIDAS); other site 439235005139 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 439235005140 binding surface 439235005141 TPR motif; other site 439235005142 TPR repeat; Region: TPR_11; pfam13414 439235005143 TPR repeat; Region: TPR_11; pfam13414 439235005144 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 439235005145 TPR motif; other site 439235005146 binding surface 439235005147 TPR repeat; Region: TPR_11; pfam13414 439235005148 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 439235005149 TPR motif; other site 439235005150 binding surface 439235005151 HTH-like domain; Region: HTH_21; pfam13276 439235005152 DDE domain; Region: DDE_Tnp_IS240; pfam13610 439235005153 Integrase core domain; Region: rve; pfam00665 439235005154 Integrase core domain; Region: rve_3; pfam13683 439235005155 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 439235005156 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 439235005157 active site 439235005158 catalytic residues [active] 439235005159 metal binding site [ion binding]; metal-binding site 439235005160 putative acetyltransferase; Provisional; Region: PRK03624 439235005161 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439235005162 Coenzyme A binding pocket [chemical binding]; other site 439235005163 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 439235005164 dimer interface [polypeptide binding]; other site 439235005165 [2Fe-2S] cluster binding site [ion binding]; other site 439235005166 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 439235005167 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 439235005168 FeS/SAM binding site; other site 439235005169 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 439235005170 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 439235005171 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 439235005172 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 439235005173 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 439235005174 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 439235005175 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 439235005176 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 439235005177 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 439235005178 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 439235005179 Nitrogen regulatory protein P-II; Region: P-II; smart00938 439235005180 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 439235005181 Nitrogen regulatory protein P-II; Region: P-II; smart00938 439235005182 nitrogenase reductase; Reviewed; Region: nifH; PRK13235 439235005183 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 439235005184 Nucleotide-binding sites [chemical binding]; other site 439235005185 Walker A motif; other site 439235005186 Switch I region of nucleotide binding site; other site 439235005187 Fe4S4 binding sites [ion binding]; other site 439235005188 Switch II region of nucleotide binding site; other site 439235005189 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 439235005190 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 439235005191 dimerization interface [polypeptide binding]; other site 439235005192 putative Zn2+ binding site [ion binding]; other site 439235005193 putative DNA binding site [nucleotide binding]; other site 439235005194 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 439235005195 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 439235005196 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 439235005197 Double zinc ribbon; Region: DZR; pfam12773 439235005198 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 439235005199 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 439235005200 cyclase homology domain; Region: CHD; cd07302 439235005201 nucleotidyl binding site; other site 439235005202 metal binding site [ion binding]; metal-binding site 439235005203 dimer interface [polypeptide binding]; other site 439235005204 AAA ATPase domain; Region: AAA_16; pfam13191 439235005205 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 439235005206 TPR motif; other site 439235005207 binding surface 439235005208 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 439235005209 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 439235005210 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 439235005211 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 439235005212 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 439235005213 oligomeric interface; other site 439235005214 putative active site [active] 439235005215 homodimer interface [polypeptide binding]; other site 439235005216 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 439235005217 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 439235005218 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439235005219 Walker A/P-loop; other site 439235005220 ATP binding site [chemical binding]; other site 439235005221 Q-loop/lid; other site 439235005222 ABC transporter signature motif; other site 439235005223 Walker B; other site 439235005224 D-loop; other site 439235005225 H-loop/switch region; other site 439235005226 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 439235005227 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 439235005228 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 439235005229 Walker A/P-loop; other site 439235005230 ATP binding site [chemical binding]; other site 439235005231 Q-loop/lid; other site 439235005232 ABC transporter signature motif; other site 439235005233 Walker B; other site 439235005234 D-loop; other site 439235005235 H-loop/switch region; other site 439235005236 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 439235005237 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 439235005238 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 439235005239 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 439235005240 dimer interface [polypeptide binding]; other site 439235005241 conserved gate region; other site 439235005242 putative PBP binding loops; other site 439235005243 ABC-ATPase subunit interface; other site 439235005244 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 439235005245 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 439235005246 dimer interface [polypeptide binding]; other site 439235005247 conserved gate region; other site 439235005248 putative PBP binding loops; other site 439235005249 ABC-ATPase subunit interface; other site 439235005250 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_2; cd08498 439235005251 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 439235005252 short chain dehydrogenase; Provisional; Region: PRK07832 439235005253 classical (c) SDRs; Region: SDR_c; cd05233 439235005254 NAD(P) binding site [chemical binding]; other site 439235005255 active site 439235005256 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 439235005257 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235005258 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235005259 Predicted amidohydrolase [General function prediction only]; Region: COG0388 439235005260 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 439235005261 putative active site [active] 439235005262 catalytic triad [active] 439235005263 putative dimer interface [polypeptide binding]; other site 439235005264 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 439235005265 Putative cyclase; Region: Cyclase; pfam04199 439235005266 FOG: CBS domain [General function prediction only]; Region: COG0517 439235005267 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 439235005268 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 439235005269 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 439235005270 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 439235005271 Protein of unknown function DUF58; Region: DUF58; pfam01882 439235005272 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 439235005273 MoxR-like ATPases [General function prediction only]; Region: COG0714 439235005274 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 439235005275 Walker A motif; other site 439235005276 ATP binding site [chemical binding]; other site 439235005277 Walker B motif; other site 439235005278 arginine finger; other site 439235005279 SCP-2 sterol transfer family; Region: SCP2; pfam02036 439235005280 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 439235005281 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 439235005282 putative metal binding residues [ion binding]; other site 439235005283 Predicted permeases [General function prediction only]; Region: COG0701 439235005284 TIGR03943 family protein; Region: TIGR03943 439235005285 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 439235005286 putative active site [active] 439235005287 putative CoA binding site [chemical binding]; other site 439235005288 nudix motif; other site 439235005289 metal binding site [ion binding]; metal-binding site 439235005290 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 439235005291 MPT binding site; other site 439235005292 trimer interface [polypeptide binding]; other site 439235005293 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235005294 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235005295 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 439235005296 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 439235005297 putative active site [active] 439235005298 catalytic triad [active] 439235005299 putative dimer interface [polypeptide binding]; other site 439235005300 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 439235005301 peptide chain release factor 2; Provisional; Region: PRK05589 439235005302 PCRF domain; Region: PCRF; pfam03462 439235005303 RF-1 domain; Region: RF-1; pfam00472 439235005304 ATP-grasp domain; Region: ATP-grasp_4; cl17255 439235005305 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235005306 Zn2+ binding site [ion binding]; other site 439235005307 Mg2+ binding site [ion binding]; other site 439235005308 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 439235005309 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 439235005310 TAP-like protein; Region: Abhydrolase_4; pfam08386 439235005311 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 439235005312 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 439235005313 tricarballylate utilization protein B; Provisional; Region: PRK15033 439235005314 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 439235005315 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 439235005316 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 439235005317 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 439235005318 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 439235005319 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 439235005320 adenosine phosphosulphate reductase, beta subunit; Region: aprB; TIGR02060 439235005321 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 439235005322 Adenosine-5'-phosphosulfate reductase beta subunit; Region: APS-reductase_C; pfam12139 439235005323 Flagellin N-methylase; Region: FliB; pfam03692 439235005324 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 439235005325 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439235005326 NAD(P) binding site [chemical binding]; other site 439235005327 active site 439235005328 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 439235005329 dimerization interface [polypeptide binding]; other site 439235005330 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 439235005331 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 439235005332 dimer interface [polypeptide binding]; other site 439235005333 putative CheW interface [polypeptide binding]; other site 439235005334 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 439235005335 dimerization interface [polypeptide binding]; other site 439235005336 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235005337 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 439235005338 dimer interface [polypeptide binding]; other site 439235005339 phosphorylation site [posttranslational modification] 439235005340 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 439235005341 ATP binding site [chemical binding]; other site 439235005342 Mg2+ binding site [ion binding]; other site 439235005343 G-X-G motif; other site 439235005344 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 439235005345 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 439235005346 active site 439235005347 phosphorylation site [posttranslational modification] 439235005348 intermolecular recognition site; other site 439235005349 dimerization interface [polypeptide binding]; other site 439235005350 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 439235005351 DNA binding site [nucleotide binding] 439235005352 inner membrane protein; Provisional; Region: PRK11715 439235005353 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 439235005354 amidase catalytic site [active] 439235005355 Zn binding residues [ion binding]; other site 439235005356 substrate binding site [chemical binding]; other site 439235005357 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235005358 Zn2+ binding site [ion binding]; other site 439235005359 Mg2+ binding site [ion binding]; other site 439235005360 HEAT repeats; Region: HEAT_2; pfam13646 439235005361 HEAT repeats; Region: HEAT_2; pfam13646 439235005362 mechanosensitive channel MscS; Provisional; Region: PRK10334 439235005363 Conserved TM helix; Region: TM_helix; pfam05552 439235005364 Mechanosensitive ion channel; Region: MS_channel; pfam00924 439235005365 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 439235005366 binding surface 439235005367 TPR motif; other site 439235005368 MG2 domain; Region: A2M_N; pfam01835 439235005369 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 439235005370 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 439235005371 Alpha-2-macroglobulin family; Region: A2M; pfam00207 439235005372 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 439235005373 surface patch; other site 439235005374 thioester region; other site 439235005375 specificity defining residues; other site 439235005376 TPR repeat; Region: TPR_11; pfam13414 439235005377 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 439235005378 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 439235005379 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 439235005380 acyl-activating enzyme (AAE) consensus motif; other site 439235005381 putative AMP binding site [chemical binding]; other site 439235005382 putative active site [active] 439235005383 putative CoA binding site [chemical binding]; other site 439235005384 CHASE4 domain; Region: CHASE4; pfam05228 439235005385 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235005386 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 439235005387 putative active site [active] 439235005388 heme pocket [chemical binding]; other site 439235005389 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 439235005390 dimer interface [polypeptide binding]; other site 439235005391 phosphorylation site [posttranslational modification] 439235005392 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 439235005393 ATP binding site [chemical binding]; other site 439235005394 Mg2+ binding site [ion binding]; other site 439235005395 G-X-G motif; other site 439235005396 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235005397 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 439235005398 active site 439235005399 phosphorylation site [posttranslational modification] 439235005400 intermolecular recognition site; other site 439235005401 dimerization interface [polypeptide binding]; other site 439235005402 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 439235005403 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 439235005404 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 439235005405 S-adenosylmethionine binding site [chemical binding]; other site 439235005406 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235005407 4Fe-4S binding domain; Region: Fer4_6; pfam12837 439235005408 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 439235005409 putative FMN binding site [chemical binding]; other site 439235005410 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 439235005411 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 439235005412 Putative capsular polysaccharide synthesis protein; Region: NKWYS; pfam10364 439235005413 MltA specific insert domain; Region: MltA; smart00925 439235005414 3D domain; Region: 3D; pfam06725 439235005415 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 439235005416 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 439235005417 non-specific DNA binding site [nucleotide binding]; other site 439235005418 salt bridge; other site 439235005419 sequence-specific DNA binding site [nucleotide binding]; other site 439235005420 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 439235005421 Preprotein binding site; other site 439235005422 SecA binding site; other site 439235005423 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235005424 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 439235005425 active site 439235005426 phosphorylation site [posttranslational modification] 439235005427 intermolecular recognition site; other site 439235005428 dimerization interface [polypeptide binding]; other site 439235005429 PAS fold; Region: PAS_3; pfam08447 439235005430 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 439235005431 dimer interface [polypeptide binding]; other site 439235005432 phosphorylation site [posttranslational modification] 439235005433 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 439235005434 ATP binding site [chemical binding]; other site 439235005435 Mg2+ binding site [ion binding]; other site 439235005436 G-X-G motif; other site 439235005437 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235005438 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 439235005439 active site 439235005440 phosphorylation site [posttranslational modification] 439235005441 intermolecular recognition site; other site 439235005442 dimerization interface [polypeptide binding]; other site 439235005443 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235005444 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 439235005445 active site 439235005446 phosphorylation site [posttranslational modification] 439235005447 intermolecular recognition site; other site 439235005448 dimerization interface [polypeptide binding]; other site 439235005449 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439235005450 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 439235005451 substrate binding pocket [chemical binding]; other site 439235005452 membrane-bound complex binding site; other site 439235005453 hinge residues; other site 439235005454 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439235005455 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 439235005456 substrate binding pocket [chemical binding]; other site 439235005457 membrane-bound complex binding site; other site 439235005458 hinge residues; other site 439235005459 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439235005460 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 439235005461 substrate binding pocket [chemical binding]; other site 439235005462 membrane-bound complex binding site; other site 439235005463 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235005464 hinge residues; other site 439235005465 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 439235005466 dimer interface [polypeptide binding]; other site 439235005467 phosphorylation site [posttranslational modification] 439235005468 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 439235005469 ATP binding site [chemical binding]; other site 439235005470 Mg2+ binding site [ion binding]; other site 439235005471 G-X-G motif; other site 439235005472 Response regulator receiver domain; Region: Response_reg; pfam00072 439235005473 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 439235005474 active site 439235005475 phosphorylation site [posttranslational modification] 439235005476 intermolecular recognition site; other site 439235005477 dimerization interface [polypeptide binding]; other site 439235005478 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 439235005479 ATP binding site [chemical binding]; other site 439235005480 Mg2+ binding site [ion binding]; other site 439235005481 G-X-G motif; other site 439235005482 Response regulator receiver domain; Region: Response_reg; pfam00072 439235005483 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 439235005484 active site 439235005485 phosphorylation site [posttranslational modification] 439235005486 intermolecular recognition site; other site 439235005487 dimerization interface [polypeptide binding]; other site 439235005488 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 439235005489 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 439235005490 active site 439235005491 phosphorylation site [posttranslational modification] 439235005492 intermolecular recognition site; other site 439235005493 dimerization interface [polypeptide binding]; other site 439235005494 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235005495 Zn2+ binding site [ion binding]; other site 439235005496 Mg2+ binding site [ion binding]; other site 439235005497 HDOD domain; Region: HDOD; pfam08668 439235005498 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235005499 Zn2+ binding site [ion binding]; other site 439235005500 Mg2+ binding site [ion binding]; other site 439235005501 Response regulator receiver domain; Region: Response_reg; pfam00072 439235005502 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 439235005503 active site 439235005504 phosphorylation site [posttranslational modification] 439235005505 intermolecular recognition site; other site 439235005506 dimerization interface [polypeptide binding]; other site 439235005507 Protein of unknown function, DUF417; Region: DUF417; cl01162 439235005508 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 439235005509 PAS domain; Region: PAS_9; pfam13426 439235005510 putative active site [active] 439235005511 heme pocket [chemical binding]; other site 439235005512 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 439235005513 putative active site [active] 439235005514 PAS fold; Region: PAS_3; pfam08447 439235005515 heme pocket [chemical binding]; other site 439235005516 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 439235005517 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 439235005518 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 439235005519 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cd00741 439235005520 nucleophilic elbow; other site 439235005521 catalytic triad; other site 439235005522 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 439235005523 interface (dimer of trimers) [polypeptide binding]; other site 439235005524 multifunctional aminopeptidase A; Provisional; Region: PRK00913 439235005525 Substrate-binding/catalytic site; other site 439235005526 Zn-binding sites [ion binding]; other site 439235005527 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 439235005528 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 439235005529 TPR motif; other site 439235005530 binding surface 439235005531 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 439235005532 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 439235005533 MarR family; Region: MarR; pfam01047 439235005534 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235005535 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 439235005536 active site 439235005537 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 439235005538 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 439235005539 substrate binding site [chemical binding]; other site 439235005540 dimer interface [polypeptide binding]; other site 439235005541 ATP binding site [chemical binding]; other site 439235005542 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 439235005543 intersubunit interface [polypeptide binding]; other site 439235005544 active site 439235005545 catalytic residue [active] 439235005546 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 439235005547 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 439235005548 catalytic residue [active] 439235005549 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 439235005550 Serine carboxypeptidase; Region: Peptidase_S10; pfam00450 439235005551 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 439235005552 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 439235005553 Transcriptional regulators [Transcription]; Region: MarR; COG1846 439235005554 MarR family; Region: MarR; pfam01047 439235005555 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 439235005556 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439235005557 4Fe-4S binding domain; Region: Fer4; pfam00037 439235005558 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 439235005559 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 439235005560 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 439235005561 Cysteine-rich domain; Region: CCG; pfam02754 439235005562 Cysteine-rich domain; Region: CCG; pfam02754 439235005563 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 439235005564 4Fe-4S binding domain; Region: Fer4; pfam00037 439235005565 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 439235005566 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 439235005567 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 439235005568 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235005569 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235005570 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 439235005571 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 439235005572 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 439235005573 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 439235005574 TPP-binding site [chemical binding]; other site 439235005575 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 439235005576 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 439235005577 PYR/PP interface [polypeptide binding]; other site 439235005578 TPP binding site [chemical binding]; other site 439235005579 dimer interface [polypeptide binding]; other site 439235005580 substrate binding site [chemical binding]; other site 439235005581 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 439235005582 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 439235005583 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235005584 HD domain; Region: HD_4; pfam13328 439235005585 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 439235005586 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 439235005587 TPR motif; other site 439235005588 binding surface 439235005589 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235005590 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 439235005591 binding surface 439235005592 TPR motif; other site 439235005593 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235005594 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235005595 Tetratricopeptide repeat; Region: TPR_10; cl17452 439235005596 Tetratricopeptide repeat; Region: TPR_10; pfam13374 439235005597 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 439235005598 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 439235005599 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 439235005600 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235005601 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 439235005602 dimer interface [polypeptide binding]; other site 439235005603 phosphorylation site [posttranslational modification] 439235005604 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 439235005605 ATP binding site [chemical binding]; other site 439235005606 Mg2+ binding site [ion binding]; other site 439235005607 G-X-G motif; other site 439235005608 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 439235005609 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 439235005610 putative NAD(P) binding site [chemical binding]; other site 439235005611 active site 439235005612 putative substrate binding site [chemical binding]; other site 439235005613 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 439235005614 Leucine carboxyl methyltransferase; Region: LCM; cl01306 439235005615 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 439235005616 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 439235005617 metal binding site 2 [ion binding]; metal-binding site 439235005618 putative DNA binding helix; other site 439235005619 metal binding site 1 [ion binding]; metal-binding site 439235005620 dimer interface [polypeptide binding]; other site 439235005621 structural Zn2+ binding site [ion binding]; other site 439235005622 FeoA domain; Region: FeoA; pfam04023 439235005623 FeoA domain; Region: FeoA; pfam04023 439235005624 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 439235005625 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 439235005626 G1 box; other site 439235005627 GTP/Mg2+ binding site [chemical binding]; other site 439235005628 Switch I region; other site 439235005629 G2 box; other site 439235005630 G3 box; other site 439235005631 Switch II region; other site 439235005632 G4 box; other site 439235005633 G5 box; other site 439235005634 Nucleoside recognition; Region: Gate; pfam07670 439235005635 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 439235005636 Nucleoside recognition; Region: Gate; pfam07670 439235005637 Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]; Region: PflX; COG1313 439235005638 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 439235005639 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 439235005640 substrate binding pocket [chemical binding]; other site 439235005641 membrane-bound complex binding site; other site 439235005642 hinge residues; other site 439235005643 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 439235005644 PAS fold; Region: PAS_3; pfam08447 439235005645 putative active site [active] 439235005646 heme pocket [chemical binding]; other site 439235005647 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235005648 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 439235005649 histidine kinase; Provisional; Region: PRK13557 439235005650 putative active site [active] 439235005651 heme pocket [chemical binding]; other site 439235005652 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 439235005653 dimer interface [polypeptide binding]; other site 439235005654 phosphorylation site [posttranslational modification] 439235005655 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 439235005656 ATP binding site [chemical binding]; other site 439235005657 Mg2+ binding site [ion binding]; other site 439235005658 G-X-G motif; other site 439235005659 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 439235005660 active site 439235005661 phosphorylation site [posttranslational modification] 439235005662 intermolecular recognition site; other site 439235005663 dimerization interface [polypeptide binding]; other site 439235005664 LVIVD repeat; Region: LVIVD; pfam08309 439235005665 Uncharacterized conserved protein [Function unknown]; Region: COG5276 439235005666 LVIVD repeat; Region: LVIVD; pfam08309 439235005667 LVIVD repeat; Region: LVIVD; pfam08309 439235005668 LVIVD repeat; Region: LVIVD; pfam08309 439235005669 LVIVD repeat; Region: LVIVD; pfam08309 439235005670 LVIVD repeat; Region: LVIVD; pfam08309 439235005671 LVIVD repeat; Region: LVIVD; pfam08309 439235005672 LVIVD repeat; Region: LVIVD; pfam08309 439235005673 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 439235005674 MarR family; Region: MarR_2; pfam12802 439235005675 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 439235005676 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 439235005677 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 439235005678 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 439235005679 TspO/MBR family; Region: TspO_MBR; pfam03073 439235005680 FOG: CBS domain [General function prediction only]; Region: COG0517 439235005681 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 439235005682 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 439235005683 DHH family; Region: DHH; pfam01368 439235005684 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 439235005685 FOG: CBS domain [General function prediction only]; Region: COG0517 439235005686 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 439235005687 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 439235005688 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 439235005689 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 439235005690 NAD binding site [chemical binding]; other site 439235005691 putative substrate binding site 2 [chemical binding]; other site 439235005692 putative substrate binding site 1 [chemical binding]; other site 439235005693 active site 439235005694 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 439235005695 IHF dimer interface [polypeptide binding]; other site 439235005696 IHF - DNA interface [nucleotide binding]; other site 439235005697 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439235005698 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 439235005699 NAD(P) binding site [chemical binding]; other site 439235005700 active site 439235005701 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 439235005702 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 439235005703 NAD(P) binding site [chemical binding]; other site 439235005704 homodimer interface [polypeptide binding]; other site 439235005705 substrate binding site [chemical binding]; other site 439235005706 active site 439235005707 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 439235005708 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 439235005709 putative ADP-binding pocket [chemical binding]; other site 439235005710 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 439235005711 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 439235005712 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 439235005713 active site 439235005714 homodimer interface [polypeptide binding]; other site 439235005715 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 439235005716 NeuB family; Region: NeuB; pfam03102 439235005717 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 439235005718 NeuB binding interface [polypeptide binding]; other site 439235005719 putative substrate binding site [chemical binding]; other site 439235005720 Methyltransferase domain; Region: Methyltransf_23; pfam13489 439235005721 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 439235005722 S-adenosylmethionine binding site [chemical binding]; other site 439235005723 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 439235005724 ligand binding site; other site 439235005725 tetramer interface; other site 439235005726 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 439235005727 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 439235005728 NAD binding site [chemical binding]; other site 439235005729 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 439235005730 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 439235005731 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 439235005732 inhibitor site; inhibition site 439235005733 active site 439235005734 dimer interface [polypeptide binding]; other site 439235005735 catalytic residue [active] 439235005736 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 439235005737 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 439235005738 active site 439235005739 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 439235005740 active site 439235005741 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 439235005742 trimer interface [polypeptide binding]; other site 439235005743 active site 439235005744 substrate binding site [chemical binding]; other site 439235005745 CoA binding site [chemical binding]; other site 439235005746 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 439235005747 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 439235005748 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 439235005749 FeS/SAM binding site; other site 439235005750 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 439235005751 ligand binding site; other site 439235005752 tetramer interface; other site 439235005753 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 439235005754 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 439235005755 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 439235005756 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 439235005757 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 439235005758 shikimate binding site; other site 439235005759 NAD(P) binding site [chemical binding]; other site 439235005760 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 439235005761 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 439235005762 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 439235005763 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 439235005764 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 439235005765 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235005766 Walker A/P-loop; other site 439235005767 ATP binding site [chemical binding]; other site 439235005768 Q-loop/lid; other site 439235005769 ABC transporter signature motif; other site 439235005770 Walker B; other site 439235005771 D-loop; other site 439235005772 H-loop/switch region; other site 439235005773 Rhomboid family; Region: Rhomboid; cl11446 439235005774 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 439235005775 dimerization interface [polypeptide binding]; other site 439235005776 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 439235005777 dimer interface [polypeptide binding]; other site 439235005778 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 439235005779 putative CheW interface [polypeptide binding]; other site 439235005780 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 439235005781 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 439235005782 CPxP motif; other site 439235005783 DsrE/DsrF-like family; Region: DrsE; pfam02635 439235005784 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 439235005785 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 439235005786 S-adenosylmethionine binding site [chemical binding]; other site 439235005787 Smr domain; Region: Smr; pfam01713 439235005788 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439235005789 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439235005790 metal binding site [ion binding]; metal-binding site 439235005791 active site 439235005792 I-site; other site 439235005793 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 439235005794 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 439235005795 putative substrate translocation pore; other site 439235005796 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 439235005797 hypothetical protein; Provisional; Region: PRK02250 439235005798 SEC-C motif; Region: SEC-C; pfam02810 439235005799 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 439235005800 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 439235005801 trimer interface [polypeptide binding]; other site 439235005802 putative metal binding site [ion binding]; other site 439235005803 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235005804 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 439235005805 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 439235005806 dimer interface [polypeptide binding]; other site 439235005807 phosphorylation site [posttranslational modification] 439235005808 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 439235005809 ATP binding site [chemical binding]; other site 439235005810 Mg2+ binding site [ion binding]; other site 439235005811 G-X-G motif; other site 439235005812 Response regulator receiver domain; Region: Response_reg; pfam00072 439235005813 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 439235005814 active site 439235005815 phosphorylation site [posttranslational modification] 439235005816 intermolecular recognition site; other site 439235005817 dimerization interface [polypeptide binding]; other site 439235005818 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 439235005819 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 439235005820 PAS domain S-box; Region: sensory_box; TIGR00229 439235005821 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 439235005822 putative active site [active] 439235005823 heme pocket [chemical binding]; other site 439235005824 PAS domain; Region: PAS_9; pfam13426 439235005825 PAS domain S-box; Region: sensory_box; TIGR00229 439235005826 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 439235005827 putative active site [active] 439235005828 heme pocket [chemical binding]; other site 439235005829 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235005830 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 439235005831 dimer interface [polypeptide binding]; other site 439235005832 phosphorylation site [posttranslational modification] 439235005833 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 439235005834 ATP binding site [chemical binding]; other site 439235005835 Mg2+ binding site [ion binding]; other site 439235005836 G-X-G motif; other site 439235005837 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235005838 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 439235005839 active site 439235005840 phosphorylation site [posttranslational modification] 439235005841 intermolecular recognition site; other site 439235005842 dimerization interface [polypeptide binding]; other site 439235005843 Domain of unknown function (DUF3524); Region: DUF3524; pfam12038 439235005844 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439235005845 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 439235005846 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 439235005847 CoA binding domain; Region: CoA_binding_2; pfam13380 439235005848 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 439235005849 Protein gp23 (Bacteriophage A118); Region: Phage_Gp23; pfam10669 439235005850 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235005851 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 439235005852 putative active site [active] 439235005853 heme pocket [chemical binding]; other site 439235005854 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 439235005855 dimer interface [polypeptide binding]; other site 439235005856 phosphorylation site [posttranslational modification] 439235005857 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 439235005858 ATP binding site [chemical binding]; other site 439235005859 Mg2+ binding site [ion binding]; other site 439235005860 G-X-G motif; other site 439235005861 Response regulator receiver domain; Region: Response_reg; pfam00072 439235005862 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 439235005863 active site 439235005864 phosphorylation site [posttranslational modification] 439235005865 intermolecular recognition site; other site 439235005866 dimerization interface [polypeptide binding]; other site 439235005867 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 439235005868 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439235005869 NAD(P) binding site [chemical binding]; other site 439235005870 active site 439235005871 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 439235005872 active site 439235005873 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 439235005874 dimer interface [polypeptide binding]; other site 439235005875 active site 439235005876 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 439235005877 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439235005878 NAD(P) binding site [chemical binding]; other site 439235005879 active site 439235005880 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 439235005881 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 439235005882 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 439235005883 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 439235005884 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 439235005885 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 439235005886 putative NAD(P) binding site [chemical binding]; other site 439235005887 active site 439235005888 putative substrate binding site [chemical binding]; other site 439235005889 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated; Region: PRK05537 439235005890 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 439235005891 active site 439235005892 nucleotide binding site [chemical binding]; other site 439235005893 HIGH motif; other site 439235005894 KMSKS motif; other site 439235005895 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 439235005896 ligand-binding site [chemical binding]; other site 439235005897 probable UDP-glucose 6-dehydrogenase; Region: PLN02353 439235005898 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 439235005899 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 439235005900 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 439235005901 PilZ domain; Region: PilZ; pfam07238 439235005902 ACT domain-containing protein [General function prediction only]; Region: COG4747 439235005903 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 439235005904 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 439235005905 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235005906 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 439235005907 acyl-activating enzyme (AAE) consensus motif; other site 439235005908 AMP binding site [chemical binding]; other site 439235005909 active site 439235005910 CoA binding site [chemical binding]; other site 439235005911 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 439235005912 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 439235005913 Walker A/P-loop; other site 439235005914 ATP binding site [chemical binding]; other site 439235005915 Q-loop/lid; other site 439235005916 ABC transporter signature motif; other site 439235005917 Walker B; other site 439235005918 D-loop; other site 439235005919 H-loop/switch region; other site 439235005920 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 439235005921 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 439235005922 Walker A/P-loop; other site 439235005923 ATP binding site [chemical binding]; other site 439235005924 Q-loop/lid; other site 439235005925 ABC transporter signature motif; other site 439235005926 Walker B; other site 439235005927 D-loop; other site 439235005928 H-loop/switch region; other site 439235005929 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 439235005930 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 439235005931 TM-ABC transporter signature motif; other site 439235005932 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 439235005933 TM-ABC transporter signature motif; other site 439235005934 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 439235005935 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 439235005936 putative ligand binding site [chemical binding]; other site 439235005937 ACT domain-containing protein [General function prediction only]; Region: COG4747 439235005938 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 439235005939 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 439235005940 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235005941 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 439235005942 acyl-activating enzyme (AAE) consensus motif; other site 439235005943 AMP binding site [chemical binding]; other site 439235005944 active site 439235005945 CoA binding site [chemical binding]; other site 439235005946 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 439235005947 phosphoglyceromutase; Provisional; Region: PRK05434 439235005948 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 439235005949 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 439235005950 enoyl-CoA hydratase; Provisional; Region: PRK06142 439235005951 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 439235005952 substrate binding site [chemical binding]; other site 439235005953 oxyanion hole (OAH) forming residues; other site 439235005954 trimer interface [polypeptide binding]; other site 439235005955 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 439235005956 Divergent AAA domain; Region: AAA_4; pfam04326 439235005957 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 439235005958 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 439235005959 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 439235005960 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 439235005961 Walker A/P-loop; other site 439235005962 ATP binding site [chemical binding]; other site 439235005963 Q-loop/lid; other site 439235005964 ABC transporter signature motif; other site 439235005965 Walker B; other site 439235005966 D-loop; other site 439235005967 H-loop/switch region; other site 439235005968 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 439235005969 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 439235005970 dimer interface [polypeptide binding]; other site 439235005971 conserved gate region; other site 439235005972 putative PBP binding loops; other site 439235005973 ABC-ATPase subunit interface; other site 439235005974 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 439235005975 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 439235005976 Transcriptional regulators [Transcription]; Region: MarR; COG1846 439235005977 MarR family; Region: MarR; pfam01047 439235005978 PAS domain S-box; Region: sensory_box; TIGR00229 439235005979 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 439235005980 putative active site [active] 439235005981 heme pocket [chemical binding]; other site 439235005982 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 439235005983 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 439235005984 Walker A motif; other site 439235005985 ATP binding site [chemical binding]; other site 439235005986 Walker B motif; other site 439235005987 arginine finger; other site 439235005988 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235005989 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 439235005990 B12 binding site [chemical binding]; other site 439235005991 cobalt ligand [ion binding]; other site 439235005992 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 439235005993 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 439235005994 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 439235005995 Walker A; other site 439235005996 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 439235005997 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 439235005998 4Fe-4S binding domain; Region: Fer4; pfam00037 439235005999 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 439235006000 FeS/SAM binding site; other site 439235006001 BssC/TutF protein; Region: BssC_TutF; pfam08201 439235006002 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 439235006003 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 439235006004 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 439235006005 MoxR-like ATPases [General function prediction only]; Region: COG0714 439235006006 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 439235006007 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 439235006008 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 439235006009 metal ion-dependent adhesion site (MIDAS); other site 439235006010 enoyl-CoA hydratase; Provisional; Region: PRK06127 439235006011 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 439235006012 substrate binding site [chemical binding]; other site 439235006013 oxyanion hole (OAH) forming residues; other site 439235006014 trimer interface [polypeptide binding]; other site 439235006015 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235006016 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 439235006017 acyl-activating enzyme (AAE) consensus motif; other site 439235006018 AMP binding site [chemical binding]; other site 439235006019 active site 439235006020 CoA binding site [chemical binding]; other site 439235006021 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 439235006022 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 439235006023 FMN binding site [chemical binding]; other site 439235006024 substrate binding site [chemical binding]; other site 439235006025 putative catalytic residue [active] 439235006026 enoyl-CoA hydratase; Provisional; Region: PRK06688 439235006027 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 439235006028 substrate binding site [chemical binding]; other site 439235006029 oxyanion hole (OAH) forming residues; other site 439235006030 trimer interface [polypeptide binding]; other site 439235006031 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 439235006032 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 439235006033 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 439235006034 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 439235006035 SIR2-like domain; Region: SIR2_2; pfam13289 439235006036 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 439235006037 Walker A motif; other site 439235006038 ATP binding site [chemical binding]; other site 439235006039 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 439235006040 binding surface 439235006041 TPR motif; other site 439235006042 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235006043 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235006044 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 439235006045 binding surface 439235006046 TPR motif; other site 439235006047 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235006048 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235006049 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 439235006050 binding surface 439235006051 TPR motif; other site 439235006052 Domain of unknown function (DUF4091); Region: DUF4091; pfam13320 439235006053 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 439235006054 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 439235006055 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 439235006056 active site 439235006057 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 439235006058 PilZ domain; Region: PilZ; pfam07238 439235006059 HAMP domain; Region: HAMP; pfam00672 439235006060 dimerization interface [polypeptide binding]; other site 439235006061 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 439235006062 dimer interface [polypeptide binding]; other site 439235006063 phosphorylation site [posttranslational modification] 439235006064 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 439235006065 ATP binding site [chemical binding]; other site 439235006066 Mg2+ binding site [ion binding]; other site 439235006067 G-X-G motif; other site 439235006068 Response regulator receiver domain; Region: Response_reg; pfam00072 439235006069 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 439235006070 active site 439235006071 phosphorylation site [posttranslational modification] 439235006072 intermolecular recognition site; other site 439235006073 dimerization interface [polypeptide binding]; other site 439235006074 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235006075 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 439235006076 active site 439235006077 phosphorylation site [posttranslational modification] 439235006078 intermolecular recognition site; other site 439235006079 dimerization interface [polypeptide binding]; other site 439235006080 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 439235006081 putative binding surface; other site 439235006082 active site 439235006083 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 439235006084 Phosphopantetheine attachment site; Region: PP-binding; cl09936 439235006085 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 439235006086 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 439235006087 dimer interface [polypeptide binding]; other site 439235006088 active site 439235006089 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 439235006090 active site 2 [active] 439235006091 active site 1 [active] 439235006092 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 439235006093 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 439235006094 dimer interface [polypeptide binding]; other site 439235006095 active site 439235006096 CoA binding pocket [chemical binding]; other site 439235006097 classical (c) SDRs; Region: SDR_c; cd05233 439235006098 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 439235006099 NAD(P) binding site [chemical binding]; other site 439235006100 active site 439235006101 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 439235006102 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 439235006103 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 439235006104 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 439235006105 Walker B motif; other site 439235006106 arginine finger; other site 439235006107 Protein of unknown function DUF89; Region: DUF89; cl15397 439235006108 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 439235006109 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 439235006110 putative active site; other site 439235006111 catalytic residue [active] 439235006112 Predicted alternative 3-dehydroquinate synthase [Amino acid transport and metabolism]; Region: COG1465 439235006113 3-dehydroquinate synthase; Provisional; Region: PRK02290 439235006114 Chorismate mutase type II; Region: CM_2; pfam01817 439235006115 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 439235006116 Prephenate dehydratase; Region: PDT; pfam00800 439235006117 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 439235006118 putative L-Phe binding site [chemical binding]; other site 439235006119 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 439235006120 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 439235006121 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 439235006122 shikimate binding site; other site 439235006123 NAD(P) binding site [chemical binding]; other site 439235006124 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 439235006125 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 439235006126 hinge; other site 439235006127 active site 439235006128 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 439235006129 Shikimate kinase; Region: SKI; pfam01202 439235006130 ADP binding site [chemical binding]; other site 439235006131 magnesium binding site [ion binding]; other site 439235006132 putative shikimate binding site; other site 439235006133 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 439235006134 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 439235006135 Tetramer interface [polypeptide binding]; other site 439235006136 active site 439235006137 FMN-binding site [chemical binding]; other site 439235006138 prephenate dehydrogenase; Validated; Region: PRK08507 439235006139 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235006140 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 439235006141 binding surface 439235006142 TPR motif; other site 439235006143 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 439235006144 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 439235006145 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 439235006146 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 439235006147 lipoprotein signal peptidase; Provisional; Region: PRK14787 439235006148 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 439235006149 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 439235006150 active site 439235006151 HIGH motif; other site 439235006152 nucleotide binding site [chemical binding]; other site 439235006153 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 439235006154 active site 439235006155 KMSKS motif; other site 439235006156 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 439235006157 tRNA binding surface [nucleotide binding]; other site 439235006158 anticodon binding site; other site 439235006159 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 439235006160 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 439235006161 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235006162 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235006163 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 439235006164 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 439235006165 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 439235006166 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 439235006167 DNA binding residues [nucleotide binding] 439235006168 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cl00399 439235006169 MoaE homodimer interface [polypeptide binding]; other site 439235006170 MoaD interaction [polypeptide binding]; other site 439235006171 active site residues [active] 439235006172 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 439235006173 oligomerization interface [polypeptide binding]; other site 439235006174 active site 439235006175 metal binding site [ion binding]; metal-binding site 439235006176 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 439235006177 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 439235006178 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 439235006179 FAD binding site [chemical binding]; other site 439235006180 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 439235006181 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 439235006182 FeS/SAM binding site; other site 439235006183 Radical SAM superfamily; Region: Radical_SAM; pfam04055 439235006184 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 439235006185 putative DNA binding site [nucleotide binding]; other site 439235006186 putative Zn2+ binding site [ion binding]; other site 439235006187 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 439235006188 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 439235006189 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 439235006190 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235006191 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 439235006192 dimer interface [polypeptide binding]; other site 439235006193 phosphorylation site [posttranslational modification] 439235006194 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 439235006195 ATP binding site [chemical binding]; other site 439235006196 Mg2+ binding site [ion binding]; other site 439235006197 G-X-G motif; other site 439235006198 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 439235006199 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 439235006200 dimer interface [polypeptide binding]; other site 439235006201 putative anticodon binding site; other site 439235006202 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 439235006203 motif 1; other site 439235006204 active site 439235006205 motif 2; other site 439235006206 motif 3; other site 439235006207 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 439235006208 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 439235006209 FtsX-like permease family; Region: FtsX; pfam02687 439235006210 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 439235006211 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 439235006212 Walker A/P-loop; other site 439235006213 ATP binding site [chemical binding]; other site 439235006214 Q-loop/lid; other site 439235006215 ABC transporter signature motif; other site 439235006216 Walker B; other site 439235006217 D-loop; other site 439235006218 H-loop/switch region; other site 439235006219 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 439235006220 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 439235006221 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 439235006222 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 439235006223 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 439235006224 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 439235006225 Surface antigen; Region: Bac_surface_Ag; pfam01103 439235006226 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 439235006227 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 439235006228 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 439235006229 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 439235006230 trimer interface [polypeptide binding]; other site 439235006231 active site 439235006232 UDP-GlcNAc binding site [chemical binding]; other site 439235006233 lipid binding site [chemical binding]; lipid-binding site 439235006234 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 439235006235 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 439235006236 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 439235006237 active site 439235006238 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 439235006239 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 439235006240 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 439235006241 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 439235006242 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 439235006243 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 439235006244 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 439235006245 putative acyl-acceptor binding pocket; other site 439235006246 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 439235006247 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 439235006248 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 439235006249 Walker A/P-loop; other site 439235006250 ATP binding site [chemical binding]; other site 439235006251 Q-loop/lid; other site 439235006252 ABC transporter signature motif; other site 439235006253 Walker B; other site 439235006254 D-loop; other site 439235006255 H-loop/switch region; other site 439235006256 DPG_synthase is involved in protein N-linked glycosylation; Region: DPG_synthase; cd04188 439235006257 Ligand binding site; other site 439235006258 Ligand binding site; other site 439235006259 Ligand binding site; other site 439235006260 Putative Catalytic site; other site 439235006261 DXD motif; other site 439235006262 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 439235006263 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 439235006264 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 439235006265 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 439235006266 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 439235006267 23S rRNA binding site [nucleotide binding]; other site 439235006268 L21 binding site [polypeptide binding]; other site 439235006269 L13 binding site [polypeptide binding]; other site 439235006270 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 439235006271 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 439235006272 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 439235006273 dimer interface [polypeptide binding]; other site 439235006274 motif 1; other site 439235006275 active site 439235006276 motif 2; other site 439235006277 motif 3; other site 439235006278 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 439235006279 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 439235006280 putative tRNA-binding site [nucleotide binding]; other site 439235006281 B3/4 domain; Region: B3_4; pfam03483 439235006282 tRNA synthetase B5 domain; Region: B5; pfam03484 439235006283 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 439235006284 dimer interface [polypeptide binding]; other site 439235006285 motif 1; other site 439235006286 motif 3; other site 439235006287 motif 2; other site 439235006288 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 439235006289 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 439235006290 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 439235006291 DNA binding residues [nucleotide binding] 439235006292 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 439235006293 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 439235006294 active site 439235006295 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 439235006296 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 439235006297 Ligand binding site; other site 439235006298 Putative Catalytic site; other site 439235006299 DXD motif; other site 439235006300 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 439235006301 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 439235006302 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 439235006303 Bacterial Ig-like domain; Region: Big_5; pfam13205 439235006304 Bacterial Ig-like domain; Region: Big_5; pfam13205 439235006305 Right handed beta helix region; Region: Beta_helix; pfam13229 439235006306 Disaggregatase related; Region: Disaggr_assoc; pfam08480 439235006307 Right handed beta helix region; Region: Beta_helix; pfam13229 439235006308 putative pectinesterase; Region: PLN02432; cl01911 439235006309 Disaggregatase related; Region: Disaggr_assoc; pfam08480 439235006310 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 439235006311 FecR protein; Region: FecR; pfam04773 439235006312 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 439235006313 TPR motif; other site 439235006314 Tetratricopeptide repeat; Region: TPR_16; pfam13432 439235006315 binding surface 439235006316 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 439235006317 binding surface 439235006318 TPR repeat; Region: TPR_11; pfam13414 439235006319 TPR motif; other site 439235006320 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 439235006321 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 439235006322 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 439235006323 binding surface 439235006324 TPR motif; other site 439235006325 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 439235006326 binding surface 439235006327 Tetratricopeptide repeat; Region: TPR_16; pfam13432 439235006328 TPR motif; other site 439235006329 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 439235006330 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 439235006331 Ligand binding site; other site 439235006332 Putative Catalytic site; other site 439235006333 DXD motif; other site 439235006334 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 439235006335 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 439235006336 putative acyl-acceptor binding pocket; other site 439235006337 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 439235006338 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 439235006339 putative NAD(P) binding site [chemical binding]; other site 439235006340 active site 439235006341 putative substrate binding site [chemical binding]; other site 439235006342 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 439235006343 PAS domain; Region: PAS_9; pfam13426 439235006344 putative active site [active] 439235006345 heme pocket [chemical binding]; other site 439235006346 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 439235006347 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 439235006348 Walker A motif; other site 439235006349 ATP binding site [chemical binding]; other site 439235006350 Walker B motif; other site 439235006351 arginine finger; other site 439235006352 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235006353 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 439235006354 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 439235006355 4Fe-4S binding domain; Region: Fer4; cl02805 439235006356 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 439235006357 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 439235006358 heme-binding residues [chemical binding]; other site 439235006359 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 439235006360 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 439235006361 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 439235006362 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 439235006363 TM2 domain; Region: TM2; pfam05154 439235006364 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 439235006365 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 439235006366 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 439235006367 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 439235006368 Dehydratase family; Region: ILVD_EDD; pfam00920 439235006369 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 439235006370 Transposase; Region: DEDD_Tnp_IS110; pfam01548 439235006371 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 439235006372 Transposase; Region: DEDD_Tnp_IS110; pfam01548 439235006373 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 439235006374 glycogen binding site [chemical binding]; other site 439235006375 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 439235006376 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 439235006377 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 439235006378 Cl binding site [ion binding]; other site 439235006379 oligomer interface [polypeptide binding]; other site 439235006380 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 439235006381 Mechanosensitive ion channel; Region: MS_channel; pfam00924 439235006382 hypothetical protein; Provisional; Region: PRK04164 439235006383 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 439235006384 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 439235006385 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 439235006386 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 439235006387 Domain of unknown function DUF21; Region: DUF21; pfam01595 439235006388 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 439235006389 Clusterin-associated protein-1; Region: Cluap1; pfam10234 439235006390 B12 binding domain; Region: B12-binding_2; pfam02607 439235006391 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; cd02065 439235006392 B12 binding site [chemical binding]; other site 439235006393 PAS domain; Region: PAS_9; pfam13426 439235006394 B12 binding domain; Region: B12-binding_2; pfam02607 439235006395 B12 binding domain; Region: B12-binding; pfam02310 439235006396 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 439235006397 Family description; Region: VCBS; pfam13517 439235006398 Family description; Region: VCBS; pfam13517 439235006399 Family description; Region: VCBS; pfam13517 439235006400 Family description; Region: VCBS; pfam13517 439235006401 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 439235006402 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 439235006403 active site 439235006404 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235006405 Nitroreductase family; Region: Nitroreductase; pfam00881 439235006406 FMN binding site [chemical binding]; other site 439235006407 dimer interface [polypeptide binding]; other site 439235006408 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 439235006409 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235006410 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235006411 acyl-activating enzyme (AAE) consensus motif; other site 439235006412 AMP binding site [chemical binding]; other site 439235006413 active site 439235006414 CoA binding site [chemical binding]; other site 439235006415 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235006416 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 439235006417 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 439235006418 active site 439235006419 SCP-2 sterol transfer family; Region: SCP2; cl01225 439235006420 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235006421 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235006422 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 439235006423 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 439235006424 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 439235006425 Amidohydrolase; Region: Amidohydro_4; pfam13147 439235006426 active site 439235006427 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 439235006428 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 439235006429 molybdopterin cofactor binding site; other site 439235006430 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 439235006431 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 439235006432 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 439235006433 molybdopterin cofactor binding site; other site 439235006434 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 439235006435 4Fe-4S binding domain; Region: Fer4; cl02805 439235006436 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 439235006437 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 439235006438 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 439235006439 active site 2 [active] 439235006440 active site 1 [active] 439235006441 Uncharacterized conserved protein [Function unknown]; Region: COG4748 439235006442 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 439235006443 Transposase IS200 like; Region: Y1_Tnp; cl00848 439235006444 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 439235006445 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 439235006446 active site 2 [active] 439235006447 active site 1 [active] 439235006448 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235006449 Zn2+ binding site [ion binding]; other site 439235006450 Mg2+ binding site [ion binding]; other site 439235006451 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235006452 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 439235006453 Walker A/P-loop; other site 439235006454 ATP binding site [chemical binding]; other site 439235006455 ABC transporter signature motif; other site 439235006456 Walker B; other site 439235006457 D-loop; other site 439235006458 H-loop/switch region; other site 439235006459 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 439235006460 Walker A/P-loop; other site 439235006461 ATP binding site [chemical binding]; other site 439235006462 Q-loop/lid; other site 439235006463 ABC transporter signature motif; other site 439235006464 Walker B; other site 439235006465 D-loop; other site 439235006466 H-loop/switch region; other site 439235006467 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 439235006468 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 439235006469 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 439235006470 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 439235006471 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 439235006472 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 439235006473 Uncharacterized conserved protein [Function unknown]; Region: COG2006 439235006474 Domain of unknown function (DUF362); Region: DUF362; pfam04015 439235006475 4Fe-4S binding domain; Region: Fer4; pfam00037 439235006476 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 439235006477 PAS domain S-box; Region: sensory_box; TIGR00229 439235006478 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 439235006479 Sensory domain found in PocR; Region: PocR; pfam10114 439235006480 PAS domain S-box; Region: sensory_box; TIGR00229 439235006481 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 439235006482 putative active site [active] 439235006483 heme pocket [chemical binding]; other site 439235006484 PAS domain S-box; Region: sensory_box; TIGR00229 439235006485 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 439235006486 putative active site [active] 439235006487 heme pocket [chemical binding]; other site 439235006488 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235006489 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 439235006490 putative active site [active] 439235006491 heme pocket [chemical binding]; other site 439235006492 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 439235006493 dimer interface [polypeptide binding]; other site 439235006494 phosphorylation site [posttranslational modification] 439235006495 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 439235006496 ATP binding site [chemical binding]; other site 439235006497 Mg2+ binding site [ion binding]; other site 439235006498 G-X-G motif; other site 439235006499 Response regulator receiver domain; Region: Response_reg; pfam00072 439235006500 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 439235006501 active site 439235006502 phosphorylation site [posttranslational modification] 439235006503 intermolecular recognition site; other site 439235006504 dimerization interface [polypeptide binding]; other site 439235006505 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 439235006506 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 439235006507 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 439235006508 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 439235006509 Walker A motif; other site 439235006510 ATP binding site [chemical binding]; other site 439235006511 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 439235006512 Cache domain; Region: Cache_1; pfam02743 439235006513 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 439235006514 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 439235006515 dimerization interface [polypeptide binding]; other site 439235006516 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 439235006517 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 439235006518 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 439235006519 NAD-dependent deacetylase; Provisional; Region: PRK00481 439235006520 SIR2 family 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-fam; cd01407 439235006521 NAD+ binding site [chemical binding]; other site 439235006522 substrate binding site [chemical binding]; other site 439235006523 Zn binding site [ion binding]; other site 439235006524 flagellin; Validated; Region: PRK08026 439235006525 Methyltransferase domain; Region: Methyltransf_31; pfam13847 439235006526 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 439235006527 S-adenosylmethionine binding site [chemical binding]; other site 439235006528 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 439235006529 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 439235006530 SapC; Region: SapC; pfam07277 439235006531 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 439235006532 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 439235006533 TPR repeat; Region: TPR_11; pfam13414 439235006534 binding surface 439235006535 TPR motif; other site 439235006536 Uncharacterized conserved protein [Function unknown]; Region: COG0432 439235006537 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 439235006538 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 439235006539 binding surface 439235006540 TPR motif; other site 439235006541 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 439235006542 TPR motif; other site 439235006543 binding surface 439235006544 NIL domain; Region: NIL; pfam09383 439235006545 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 439235006546 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 439235006547 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 439235006548 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 439235006549 Ligand Binding Site [chemical binding]; other site 439235006550 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 439235006551 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 439235006552 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 439235006553 FeS/SAM binding site; other site 439235006554 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 439235006555 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 439235006556 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 439235006557 alphaNTD homodimer interface [polypeptide binding]; other site 439235006558 alphaNTD - beta interaction site [polypeptide binding]; other site 439235006559 alphaNTD - beta' interaction site [polypeptide binding]; other site 439235006560 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 439235006561 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 439235006562 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 439235006563 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 439235006564 RNA binding surface [nucleotide binding]; other site 439235006565 30S ribosomal protein S11; Validated; Region: PRK05309 439235006566 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 439235006567 30S ribosomal protein S13; Region: bact_S13; TIGR03631 439235006568 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 439235006569 rRNA binding site [nucleotide binding]; other site 439235006570 predicted 30S ribosome binding site; other site 439235006571 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 439235006572 active site 439235006573 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 439235006574 SecY translocase; Region: SecY; pfam00344 439235006575 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 439235006576 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 439235006577 23S rRNA binding site [nucleotide binding]; other site 439235006578 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 439235006579 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 439235006580 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 439235006581 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 439235006582 5S rRNA interface [nucleotide binding]; other site 439235006583 L27 interface [polypeptide binding]; other site 439235006584 23S rRNA interface [nucleotide binding]; other site 439235006585 L5 interface [polypeptide binding]; other site 439235006586 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 439235006587 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 439235006588 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 439235006589 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 439235006590 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 439235006591 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 439235006592 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 439235006593 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 439235006594 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 439235006595 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 439235006596 RNA binding site [nucleotide binding]; other site 439235006597 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 439235006598 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 439235006599 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 439235006600 23S rRNA interface [nucleotide binding]; other site 439235006601 putative translocon interaction site; other site 439235006602 signal recognition particle (SRP54) interaction site; other site 439235006603 L23 interface [polypeptide binding]; other site 439235006604 trigger factor interaction site; other site 439235006605 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 439235006606 23S rRNA interface [nucleotide binding]; other site 439235006607 5S rRNA interface [nucleotide binding]; other site 439235006608 putative antibiotic binding site [chemical binding]; other site 439235006609 L25 interface [polypeptide binding]; other site 439235006610 L27 interface [polypeptide binding]; other site 439235006611 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 439235006612 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 439235006613 G-X-X-G motif; other site 439235006614 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 439235006615 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 439235006616 putative translocon binding site; other site 439235006617 protein-rRNA interface [nucleotide binding]; other site 439235006618 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 439235006619 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 439235006620 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 439235006621 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 439235006622 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 439235006623 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 439235006624 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 439235006625 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 439235006626 elongation factor Tu; Reviewed; Region: PRK00049 439235006627 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 439235006628 G1 box; other site 439235006629 GEF interaction site [polypeptide binding]; other site 439235006630 GTP/Mg2+ binding site [chemical binding]; other site 439235006631 Switch I region; other site 439235006632 G2 box; other site 439235006633 G3 box; other site 439235006634 Switch II region; other site 439235006635 G4 box; other site 439235006636 G5 box; other site 439235006637 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 439235006638 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 439235006639 Antibiotic Binding Site [chemical binding]; other site 439235006640 30S ribosomal protein S7; Validated; Region: PRK05302 439235006641 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 439235006642 S17 interaction site [polypeptide binding]; other site 439235006643 S8 interaction site; other site 439235006644 16S rRNA interaction site [nucleotide binding]; other site 439235006645 streptomycin interaction site [chemical binding]; other site 439235006646 23S rRNA interaction site [nucleotide binding]; other site 439235006647 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 439235006648 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 439235006649 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 439235006650 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 439235006651 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 439235006652 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 439235006653 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 439235006654 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 439235006655 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 439235006656 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 439235006657 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 439235006658 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 439235006659 DNA binding site [nucleotide binding] 439235006660 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 439235006661 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 439235006662 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 439235006663 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 439235006664 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 439235006665 RPB11 interaction site [polypeptide binding]; other site 439235006666 RPB12 interaction site [polypeptide binding]; other site 439235006667 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 439235006668 RPB3 interaction site [polypeptide binding]; other site 439235006669 RPB1 interaction site [polypeptide binding]; other site 439235006670 RPB11 interaction site [polypeptide binding]; other site 439235006671 RPB10 interaction site [polypeptide binding]; other site 439235006672 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 439235006673 core dimer interface [polypeptide binding]; other site 439235006674 peripheral dimer interface [polypeptide binding]; other site 439235006675 L10 interface [polypeptide binding]; other site 439235006676 L11 interface [polypeptide binding]; other site 439235006677 putative EF-Tu interaction site [polypeptide binding]; other site 439235006678 putative EF-G interaction site [polypeptide binding]; other site 439235006679 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 439235006680 23S rRNA interface [nucleotide binding]; other site 439235006681 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 439235006682 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 439235006683 mRNA/rRNA interface [nucleotide binding]; other site 439235006684 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 439235006685 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 439235006686 23S rRNA interface [nucleotide binding]; other site 439235006687 L7/L12 interface [polypeptide binding]; other site 439235006688 putative thiostrepton binding site; other site 439235006689 L25 interface [polypeptide binding]; other site 439235006690 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 439235006691 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 439235006692 putative homodimer interface [polypeptide binding]; other site 439235006693 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 439235006694 heterodimer interface [polypeptide binding]; other site 439235006695 homodimer interface [polypeptide binding]; other site 439235006696 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 439235006697 elongation factor Tu; Reviewed; Region: PRK00049 439235006698 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 439235006699 G1 box; other site 439235006700 GEF interaction site [polypeptide binding]; other site 439235006701 GTP/Mg2+ binding site [chemical binding]; other site 439235006702 Switch I region; other site 439235006703 G2 box; other site 439235006704 G3 box; other site 439235006705 Switch II region; other site 439235006706 G4 box; other site 439235006707 G5 box; other site 439235006708 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 439235006709 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 439235006710 Antibiotic Binding Site [chemical binding]; other site 439235006711 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 439235006712 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 439235006713 N-acetyl-D-glucosamine binding site [chemical binding]; other site 439235006714 catalytic residue [active] 439235006715 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 439235006716 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 439235006717 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 439235006718 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 439235006719 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 439235006720 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 439235006721 hypothetical protein; Provisional; Region: PRK11820 439235006722 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 439235006723 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 439235006724 hypothetical protein; Provisional; Region: PRK04323 439235006725 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 439235006726 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 439235006727 catalytic site [active] 439235006728 G-X2-G-X-G-K; other site 439235006729 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 439235006730 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 439235006731 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 439235006732 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 439235006733 isocitrate dehydrogenase; Validated; Region: PRK07362 439235006734 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 439235006735 PAS domain; Region: PAS_9; pfam13426 439235006736 putative active site [active] 439235006737 heme pocket [chemical binding]; other site 439235006738 GAF domain; Region: GAF_2; pfam13185 439235006739 GAF domain; Region: GAF; pfam01590 439235006740 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235006741 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 439235006742 dimer interface [polypeptide binding]; other site 439235006743 phosphorylation site [posttranslational modification] 439235006744 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 439235006745 ATP binding site [chemical binding]; other site 439235006746 Mg2+ binding site [ion binding]; other site 439235006747 G-X-G motif; other site 439235006748 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235006749 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 439235006750 active site 439235006751 phosphorylation site [posttranslational modification] 439235006752 intermolecular recognition site; other site 439235006753 dimerization interface [polypeptide binding]; other site 439235006754 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 439235006755 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 439235006756 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 439235006757 active site 439235006758 Predicted amidohydrolase [General function prediction only]; Region: COG0388 439235006759 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 439235006760 putative active site [active] 439235006761 catalytic triad [active] 439235006762 putative dimer interface [polypeptide binding]; other site 439235006763 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 439235006764 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 439235006765 active site 439235006766 nucleotide binding site [chemical binding]; other site 439235006767 HIGH motif; other site 439235006768 KMSKS motif; other site 439235006769 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 439235006770 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 439235006771 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 439235006772 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 439235006773 FAD binding pocket [chemical binding]; other site 439235006774 FAD binding motif [chemical binding]; other site 439235006775 phosphate binding motif [ion binding]; other site 439235006776 beta-alpha-beta structure motif; other site 439235006777 NAD binding pocket [chemical binding]; other site 439235006778 Iron coordination center [ion binding]; other site 439235006779 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 439235006780 dimerization domain swap beta strand [polypeptide binding]; other site 439235006781 regulatory protein interface [polypeptide binding]; other site 439235006782 active site 439235006783 regulatory phosphorylation site [posttranslational modification]; other site 439235006784 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 439235006785 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 439235006786 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 439235006787 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 439235006788 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 439235006789 SmpB-tmRNA interface; other site 439235006790 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 439235006791 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 439235006792 S-adenosylmethionine binding site [chemical binding]; other site 439235006793 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235006794 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235006795 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 439235006796 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 439235006797 TIR domain; Region: TIR_2; pfam13676 439235006798 LabA_like proteins; Region: LabA_like; cd06167 439235006799 putative metal binding site [ion binding]; other site 439235006800 Uncharacterized conserved protein [Function unknown]; Region: COG1432 439235006801 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 439235006802 DNA-binding site [nucleotide binding]; DNA binding site 439235006803 RNA-binding motif; other site 439235006804 EF-hand domain pair; Region: EF_hand_5; pfam13499 439235006805 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 439235006806 EF-hand domain pair; Region: EF_hand_5; pfam13499 439235006807 Ca2+ binding site [ion binding]; other site 439235006808 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 439235006809 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 439235006810 putative substrate translocation pore; other site 439235006811 Transposase [DNA replication, recombination, and repair]; Region: COG5421 439235006812 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 439235006813 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 439235006814 catalytic site [active] 439235006815 putative active site [active] 439235006816 putative substrate binding site [chemical binding]; other site 439235006817 HRDC domain; Region: HRDC; pfam00570 439235006818 HRDC domain; Region: HRDC; pfam00570 439235006819 hypothetical protein; Provisional; Region: PLN03150 439235006820 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 439235006821 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 439235006822 Bacterial SH3 domain; Region: SH3_4; pfam06347 439235006823 Bacterial SH3 domain; Region: SH3_4; pfam06347 439235006824 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 439235006825 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 439235006826 substrate binding site [chemical binding]; other site 439235006827 ATP binding site [chemical binding]; other site 439235006828 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 439235006829 TPR motif; other site 439235006830 binding surface 439235006831 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 439235006832 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 439235006833 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 439235006834 active site 439235006835 phosphorylation site [posttranslational modification] 439235006836 intermolecular recognition site; other site 439235006837 dimerization interface [polypeptide binding]; other site 439235006838 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 439235006839 Walker A motif; other site 439235006840 ATP binding site [chemical binding]; other site 439235006841 Walker B motif; other site 439235006842 arginine finger; other site 439235006843 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235006844 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 439235006845 dimer interface [polypeptide binding]; other site 439235006846 phosphorylation site [posttranslational modification] 439235006847 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 439235006848 ATP binding site [chemical binding]; other site 439235006849 Mg2+ binding site [ion binding]; other site 439235006850 G-X-G motif; other site 439235006851 Nif-specific regulatory protein; Region: nifA; TIGR01817 439235006852 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 439235006853 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 439235006854 Walker A motif; other site 439235006855 ATP binding site [chemical binding]; other site 439235006856 Walker B motif; other site 439235006857 arginine finger; other site 439235006858 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235006859 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 439235006860 binding surface 439235006861 TPR repeat; Region: TPR_11; pfam13414 439235006862 TPR motif; other site 439235006863 TPR repeat; Region: TPR_11; pfam13414 439235006864 TPR repeat; Region: TPR_11; pfam13414 439235006865 Sporulation related domain; Region: SPOR; pfam05036 439235006866 Sporulation related domain; Region: SPOR; cl10051 439235006867 phosphoglucomutase; Validated; Region: PRK07564 439235006868 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 439235006869 active site 439235006870 substrate binding site [chemical binding]; other site 439235006871 metal binding site [ion binding]; metal-binding site 439235006872 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 439235006873 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 439235006874 active site 439235006875 substrate binding site [chemical binding]; other site 439235006876 cosubstrate binding site; other site 439235006877 catalytic site [active] 439235006878 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 439235006879 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 439235006880 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 439235006881 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 439235006882 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 439235006883 NAD(P) binding site [chemical binding]; other site 439235006884 catalytic residues [active] 439235006885 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 439235006886 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 439235006887 DXD motif; other site 439235006888 N-terminal domain of galactosyltransferase; Region: Glyco_transf_7C; cl17476 439235006889 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 439235006890 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 439235006891 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 439235006892 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235006893 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 439235006894 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 439235006895 putative dimer interface [polypeptide binding]; other site 439235006896 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439235006897 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 439235006898 NAD(P) binding site [chemical binding]; other site 439235006899 active site 439235006900 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 439235006901 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 439235006902 putative acyl-acceptor binding pocket; other site 439235006903 hypothetical protein; Provisional; Region: PRK08328 439235006904 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 439235006905 ATP binding site [chemical binding]; other site 439235006906 substrate interface [chemical binding]; other site 439235006907 Ubiquitin-like proteins; Region: UBQ; cl00155 439235006908 charged pocket; other site 439235006909 hydrophobic patch; other site 439235006910 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 439235006911 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 439235006912 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235006913 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 439235006914 acyl-activating enzyme (AAE) consensus motif; other site 439235006915 acyl-activating enzyme (AAE) consensus motif; other site 439235006916 putative AMP binding site [chemical binding]; other site 439235006917 putative active site [active] 439235006918 putative CoA binding site [chemical binding]; other site 439235006919 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 439235006920 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 439235006921 Walker A/P-loop; other site 439235006922 ATP binding site [chemical binding]; other site 439235006923 Q-loop/lid; other site 439235006924 ABC transporter signature motif; other site 439235006925 Walker B; other site 439235006926 D-loop; other site 439235006927 H-loop/switch region; other site 439235006928 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 439235006929 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 439235006930 Walker A/P-loop; other site 439235006931 ATP binding site [chemical binding]; other site 439235006932 Q-loop/lid; other site 439235006933 ABC transporter signature motif; other site 439235006934 Walker B; other site 439235006935 D-loop; other site 439235006936 H-loop/switch region; other site 439235006937 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 439235006938 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 439235006939 TM-ABC transporter signature motif; other site 439235006940 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 439235006941 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439235006942 TM-ABC transporter signature motif; other site 439235006943 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 439235006944 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 439235006945 putative ligand binding site [chemical binding]; other site 439235006946 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 439235006947 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 439235006948 DNA binding residues [nucleotide binding] 439235006949 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 439235006950 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 439235006951 B12 binding site [chemical binding]; other site 439235006952 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 439235006953 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 439235006954 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 439235006955 dimerization interface [polypeptide binding]; other site 439235006956 putative DNA binding site [nucleotide binding]; other site 439235006957 putative Zn2+ binding site [ion binding]; other site 439235006958 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 439235006959 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 439235006960 GIY-YIG motif/motif A; other site 439235006961 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 439235006962 binding surface 439235006963 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235006964 TPR motif; other site 439235006965 TPR repeat; Region: TPR_11; pfam13414 439235006966 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235006967 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 439235006968 binding surface 439235006969 TPR motif; other site 439235006970 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235006971 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235006972 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 439235006973 TPR motif; other site 439235006974 binding surface 439235006975 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235006976 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 439235006977 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 439235006978 Walker A motif; other site 439235006979 ATP binding site [chemical binding]; other site 439235006980 Walker B motif; other site 439235006981 arginine finger; other site 439235006982 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 439235006983 hypothetical protein; Validated; Region: PRK00153 439235006984 recombination protein RecR; Reviewed; Region: recR; PRK00076 439235006985 Helix-hairpin-helix DNA-binding motif class 1; Region: HhH1; smart00278 439235006986 RecR protein; Region: RecR; pfam02132 439235006987 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 439235006988 putative active site [active] 439235006989 putative metal-binding site [ion binding]; other site 439235006990 tetramer interface [polypeptide binding]; other site 439235006991 Flagellin N-methylase; Region: FliB; pfam03692 439235006992 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 439235006993 cobalt transport protein CbiM; Validated; Region: PRK06265 439235006994 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 439235006995 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 439235006996 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 439235006997 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 439235006998 Walker A/P-loop; other site 439235006999 ATP binding site [chemical binding]; other site 439235007000 Q-loop/lid; other site 439235007001 ABC transporter signature motif; other site 439235007002 Walker B; other site 439235007003 D-loop; other site 439235007004 H-loop/switch region; other site 439235007005 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 439235007006 oxyanion hole [active] 439235007007 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 439235007008 Peptidase family M48; Region: Peptidase_M48; pfam01435 439235007009 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 439235007010 dimerization interface [polypeptide binding]; other site 439235007011 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 439235007012 ATP binding site [chemical binding]; other site 439235007013 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 439235007014 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 439235007015 Acylphosphatase; Region: Acylphosphatase; pfam00708 439235007016 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 439235007017 HypF finger; Region: zf-HYPF; pfam07503 439235007018 HypF finger; Region: zf-HYPF; pfam07503 439235007019 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 439235007020 HupF/HypC family; Region: HupF_HypC; pfam01455 439235007021 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 439235007022 Sel1-like repeats; Region: SEL1; smart00671 439235007023 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 439235007024 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 439235007025 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 439235007026 dimerization interface [polypeptide binding]; other site 439235007027 PAS fold; Region: PAS; pfam00989 439235007028 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 439235007029 putative active site [active] 439235007030 heme pocket [chemical binding]; other site 439235007031 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 439235007032 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 439235007033 putative active site [active] 439235007034 heme pocket [chemical binding]; other site 439235007035 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 439235007036 dimer interface [polypeptide binding]; other site 439235007037 phosphorylation site [posttranslational modification] 439235007038 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 439235007039 ATP binding site [chemical binding]; other site 439235007040 Mg2+ binding site [ion binding]; other site 439235007041 G-X-G motif; other site 439235007042 Response regulator receiver domain; Region: Response_reg; pfam00072 439235007043 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 439235007044 active site 439235007045 phosphorylation site [posttranslational modification] 439235007046 intermolecular recognition site; other site 439235007047 dimerization interface [polypeptide binding]; other site 439235007048 Response regulator receiver domain; Region: Response_reg; pfam00072 439235007049 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 439235007050 active site 439235007051 phosphorylation site [posttranslational modification] 439235007052 intermolecular recognition site; other site 439235007053 dimerization interface [polypeptide binding]; other site 439235007054 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 439235007055 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 439235007056 Mechanosensitive ion channel; Region: MS_channel; pfam00924 439235007057 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 439235007058 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 439235007059 oligomer interface [polypeptide binding]; other site 439235007060 metal binding site [ion binding]; metal-binding site 439235007061 metal binding site [ion binding]; metal-binding site 439235007062 Cl binding site [ion binding]; other site 439235007063 aspartate ring; other site 439235007064 basic sphincter; other site 439235007065 putative hydrophobic gate; other site 439235007066 periplasmic entrance; other site 439235007067 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 439235007068 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 439235007069 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235007070 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235007071 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 439235007072 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 439235007073 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 439235007074 HlyD family secretion protein; Region: HlyD_3; pfam13437 439235007075 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 439235007076 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 439235007077 Walker A/P-loop; other site 439235007078 ATP binding site [chemical binding]; other site 439235007079 Q-loop/lid; other site 439235007080 ABC transporter signature motif; other site 439235007081 Walker B; other site 439235007082 D-loop; other site 439235007083 H-loop/switch region; other site 439235007084 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 439235007085 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 439235007086 Walker A/P-loop; other site 439235007087 ATP binding site [chemical binding]; other site 439235007088 Q-loop/lid; other site 439235007089 ABC transporter signature motif; other site 439235007090 Walker B; other site 439235007091 D-loop; other site 439235007092 H-loop/switch region; other site 439235007093 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 439235007094 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 439235007095 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 439235007096 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 439235007097 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 439235007098 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 439235007099 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 439235007100 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 439235007101 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 439235007102 hybrid cluster protein; Provisional; Region: PRK05290 439235007103 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 439235007104 ACS interaction site; other site 439235007105 CODH interaction site; other site 439235007106 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 439235007107 ACS interaction site; other site 439235007108 CODH interaction site; other site 439235007109 metal cluster binding site [ion binding]; other site 439235007110 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 439235007111 dimer interface [polypeptide binding]; other site 439235007112 catalytic triad [active] 439235007113 peroxidatic and resolving cysteines [active] 439235007114 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 439235007115 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 439235007116 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 439235007117 SurA N-terminal domain; Region: SurA_N_3; cl07813 439235007118 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 439235007119 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05605 439235007120 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 439235007121 acyl-activating enzyme (AAE) consensus motif; other site 439235007122 putative AMP binding site [chemical binding]; other site 439235007123 putative active site [active] 439235007124 putative CoA binding site [chemical binding]; other site 439235007125 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 439235007126 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439235007127 NAD(P) binding site [chemical binding]; other site 439235007128 active site 439235007129 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 439235007130 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439235007131 Coenzyme A binding pocket [chemical binding]; other site 439235007132 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 439235007133 3-ketodihydrosphingosine reductase (KDSR) and related proteins, classical (c) SDR; Region: KDSR-like_SDR_c; cd08939 439235007134 putative NAD(P) binding site [chemical binding]; other site 439235007135 homotetramer interface [polypeptide binding]; other site 439235007136 active site 439235007137 homodimer interface [polypeptide binding]; other site 439235007138 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 439235007139 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 439235007140 dimer interface [polypeptide binding]; other site 439235007141 phosphorylation site [posttranslational modification] 439235007142 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 439235007143 ATP binding site [chemical binding]; other site 439235007144 Mg2+ binding site [ion binding]; other site 439235007145 G-X-G motif; other site 439235007146 Response regulator receiver domain; Region: Response_reg; pfam00072 439235007147 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 439235007148 active site 439235007149 phosphorylation site [posttranslational modification] 439235007150 intermolecular recognition site; other site 439235007151 dimerization interface [polypeptide binding]; other site 439235007152 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 439235007153 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 439235007154 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 439235007155 DNA binding residues [nucleotide binding] 439235007156 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 439235007157 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 439235007158 putative active site [active] 439235007159 heme pocket [chemical binding]; other site 439235007160 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 439235007161 putative active site [active] 439235007162 heme pocket [chemical binding]; other site 439235007163 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 439235007164 dimer interface [polypeptide binding]; other site 439235007165 phosphorylation site [posttranslational modification] 439235007166 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 439235007167 ATP binding site [chemical binding]; other site 439235007168 Mg2+ binding site [ion binding]; other site 439235007169 G-X-G motif; other site 439235007170 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235007171 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 439235007172 active site 439235007173 phosphorylation site [posttranslational modification] 439235007174 intermolecular recognition site; other site 439235007175 dimerization interface [polypeptide binding]; other site 439235007176 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 439235007177 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 439235007178 Walker A/P-loop; other site 439235007179 ATP binding site [chemical binding]; other site 439235007180 Q-loop/lid; other site 439235007181 ABC transporter signature motif; other site 439235007182 Walker B; other site 439235007183 D-loop; other site 439235007184 H-loop/switch region; other site 439235007185 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 439235007186 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 439235007187 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439235007188 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 439235007189 heat shock protein HtpX; Provisional; Region: PRK03982 439235007190 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 439235007191 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 439235007192 substrate binding site [chemical binding]; other site 439235007193 oxyanion hole (OAH) forming residues; other site 439235007194 trimer interface [polypeptide binding]; other site 439235007195 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 439235007196 MarR family; Region: MarR_2; pfam12802 439235007197 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 439235007198 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 439235007199 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 439235007200 Walker A motif; other site 439235007201 ATP binding site [chemical binding]; other site 439235007202 Walker B motif; other site 439235007203 arginine finger; other site 439235007204 VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762 439235007205 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 439235007206 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 439235007207 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 439235007208 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 439235007209 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 439235007210 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 439235007211 AIR carboxylase; Region: AIRC; pfam00731 439235007212 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 439235007213 TIGR03032 family protein; Region: TIGR03032 439235007214 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439235007215 Coenzyme A binding pocket [chemical binding]; other site 439235007216 CheD chemotactic sensory transduction; Region: CheD; cl00810 439235007217 Family description; Region: VCBS; pfam13517 439235007218 Family description; Region: VCBS; pfam13517 439235007219 Family description; Region: VCBS; pfam13517 439235007220 Family description; Region: VCBS; pfam13517 439235007221 Family description; Region: VCBS; pfam13517 439235007222 Family description; Region: VCBS; pfam13517 439235007223 TIGR03084 family protein; Region: TIGR03084 439235007224 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 439235007225 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235007226 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235007227 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 439235007228 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 439235007229 substrate binding site [chemical binding]; other site 439235007230 oxyanion hole (OAH) forming residues; other site 439235007231 trimer interface [polypeptide binding]; other site 439235007232 Ferredoxin [Energy production and conversion]; Region: COG1146 439235007233 4Fe-4S binding domain; Region: Fer4; pfam00037 439235007234 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 439235007235 enoyl-CoA hydratase; Provisional; Region: PRK06688 439235007236 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 439235007237 substrate binding site [chemical binding]; other site 439235007238 oxyanion hole (OAH) forming residues; other site 439235007239 trimer interface [polypeptide binding]; other site 439235007240 xanthine permease; Region: pbuX; TIGR03173 439235007241 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 439235007242 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 439235007243 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235007244 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235007245 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235007246 active site 439235007247 enoyl-CoA hydratase; Provisional; Region: PRK05995 439235007248 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 439235007249 substrate binding site [chemical binding]; other site 439235007250 oxyanion hole (OAH) forming residues; other site 439235007251 trimer interface [polypeptide binding]; other site 439235007252 PAS domain S-box; Region: sensory_box; TIGR00229 439235007253 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 439235007254 putative active site [active] 439235007255 heme pocket [chemical binding]; other site 439235007256 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235007257 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 439235007258 dimer interface [polypeptide binding]; other site 439235007259 phosphorylation site [posttranslational modification] 439235007260 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 439235007261 ATP binding site [chemical binding]; other site 439235007262 Mg2+ binding site [ion binding]; other site 439235007263 G-X-G motif; other site 439235007264 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235007265 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 439235007266 active site 439235007267 phosphorylation site [posttranslational modification] 439235007268 intermolecular recognition site; other site 439235007269 dimerization interface [polypeptide binding]; other site 439235007270 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 439235007271 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 439235007272 aldehyde oxidase; Region: PLN00192 439235007273 Ion channel; Region: Ion_trans_2; pfam07885 439235007274 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 439235007275 TrkA-N domain; Region: TrkA_N; pfam02254 439235007276 TrkA-C domain; Region: TrkA_C; pfam02080 439235007277 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 439235007278 putative lipid binding site [chemical binding]; other site 439235007279 Fic family protein [Function unknown]; Region: COG3177 439235007280 Fic/DOC family; Region: Fic; pfam02661 439235007281 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439235007282 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439235007283 I-site; other site 439235007284 active site 439235007285 metal binding site [ion binding]; metal-binding site 439235007286 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 439235007287 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 439235007288 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 439235007289 S-adenosylmethionine binding site [chemical binding]; other site 439235007290 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 439235007291 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 439235007292 nucleotide binding site/active site [active] 439235007293 HIT family signature motif; other site 439235007294 catalytic residue [active] 439235007295 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 439235007296 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 439235007297 Clp amino terminal domain; Region: Clp_N; pfam02861 439235007298 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 439235007299 Walker A motif; other site 439235007300 ATP binding site [chemical binding]; other site 439235007301 Walker B motif; other site 439235007302 arginine finger; other site 439235007303 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 439235007304 Walker A motif; other site 439235007305 ATP binding site [chemical binding]; other site 439235007306 Walker B motif; other site 439235007307 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 439235007308 Uncharacterized conserved protein [Function unknown]; Region: COG2127 439235007309 FAD dependent oxidoreductase; Region: DAO; pfam01266 439235007310 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439235007311 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 439235007312 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439235007313 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439235007314 metal binding site [ion binding]; metal-binding site 439235007315 active site 439235007316 I-site; other site 439235007317 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439235007318 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 439235007319 ligand binding site [chemical binding]; other site 439235007320 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439235007321 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 439235007322 ligand binding site [chemical binding]; other site 439235007323 flexible hinge region; other site 439235007324 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 439235007325 active site 439235007326 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 439235007327 nucleophile elbow; other site 439235007328 Protein of unknown function (DUF554); Region: DUF554; pfam04474 439235007329 PilZ domain; Region: PilZ; pfam07238 439235007330 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 439235007331 Peptidase family U32; Region: Peptidase_U32; pfam01136 439235007332 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 439235007333 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235007334 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235007335 active site 439235007336 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 439235007337 Coenzyme A transferase; Region: CoA_trans; cl17247 439235007338 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 439235007339 Predicted transcriptional regulators [Transcription]; Region: COG1695 439235007340 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 439235007341 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 439235007342 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 439235007343 active site 439235007344 catalytic residues [active] 439235007345 DNA binding site [nucleotide binding] 439235007346 Int/Topo IB signature motif; other site 439235007347 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 439235007348 active site 439235007349 DNA binding site [nucleotide binding] 439235007350 Int/Topo IB signature motif; other site 439235007351 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 439235007352 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 439235007353 nucleotide binding region [chemical binding]; other site 439235007354 CHC2 zinc finger; Region: zf-CHC2; cl17510 439235007355 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 439235007356 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 439235007357 active site 439235007358 metal binding site [ion binding]; metal-binding site 439235007359 interdomain interaction site; other site 439235007360 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 439235007361 DNA binding residues [nucleotide binding] 439235007362 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 439235007363 N-acetyl-D-glucosamine binding site [chemical binding]; other site 439235007364 catalytic residue [active] 439235007365 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 439235007366 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 439235007367 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 439235007368 Peptidase C13 family; Region: Peptidase_C13; cl02159 439235007369 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 439235007370 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 439235007371 FOG: WD40-like repeat [Function unknown]; Region: COG1520 439235007372 FOG: WD40-like repeat [Function unknown]; Region: COG1520 439235007373 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 439235007374 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 439235007375 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 439235007376 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 439235007377 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 439235007378 Ser-Thr-rich glycosyl-phosphatidyl-inositol-anchored membrane family; Region: GPI-anchored; pfam10342 439235007379 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 439235007380 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 439235007381 Ser-Thr-rich glycosyl-phosphatidyl-inositol-anchored membrane family; Region: GPI-anchored; pfam10342 439235007382 LVIVD repeat; Region: LVIVD; pfam08309 439235007383 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 439235007384 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 439235007385 Ser-Thr-rich glycosyl-phosphatidyl-inositol-anchored membrane family; Region: GPI-anchored; pfam10342 439235007386 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 439235007387 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 439235007388 Peptidase C13 family; Region: Peptidase_C13; cl02159 439235007389 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 439235007390 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 439235007391 Ser-Thr-rich glycosyl-phosphatidyl-inositol-anchored membrane family; Region: GPI-anchored; pfam10342 439235007392 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 439235007393 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 439235007394 TPR motif; other site 439235007395 TPR repeat; Region: TPR_11; pfam13414 439235007396 binding surface 439235007397 TPR repeat; Region: TPR_11; pfam13414 439235007398 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 439235007399 binding surface 439235007400 TPR motif; other site 439235007401 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 439235007402 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 439235007403 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 439235007404 Uncharacterized conserved protein [Function unknown]; Region: COG3391 439235007405 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 439235007406 Peptidase C13 family; Region: Peptidase_C13; cl02159 439235007407 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 439235007408 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 439235007409 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 439235007410 Peptidase C13 family; Region: Peptidase_C13; cl02159 439235007411 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 439235007412 Ion channel; Region: Ion_trans_2; pfam07885 439235007413 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 439235007414 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 439235007415 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 439235007416 Domain of unknown function DUF20; Region: UPF0118; pfam01594 439235007417 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439235007418 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439235007419 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 439235007420 dimerization interface [polypeptide binding]; other site 439235007421 Predicted metal-binding protein (DUF2284); Region: DUF2284; pfam10050 439235007422 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 439235007423 GAF domain; Region: GAF_2; pfam13185 439235007424 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235007425 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 439235007426 dimer interface [polypeptide binding]; other site 439235007427 phosphorylation site [posttranslational modification] 439235007428 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 439235007429 ATP binding site [chemical binding]; other site 439235007430 Mg2+ binding site [ion binding]; other site 439235007431 G-X-G motif; other site 439235007432 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 439235007433 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 439235007434 active site 439235007435 phosphorylation site [posttranslational modification] 439235007436 intermolecular recognition site; other site 439235007437 dimerization interface [polypeptide binding]; other site 439235007438 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 439235007439 binding surface 439235007440 Tetratricopeptide repeat; Region: TPR_16; pfam13432 439235007441 TPR motif; other site 439235007442 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235007443 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 439235007444 TPR motif; other site 439235007445 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 439235007446 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 439235007447 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235007448 Walker A/P-loop; other site 439235007449 ATP binding site [chemical binding]; other site 439235007450 Q-loop/lid; other site 439235007451 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 439235007452 ABC transporter signature motif; other site 439235007453 Walker B; other site 439235007454 D-loop; other site 439235007455 ABC transporter; Region: ABC_tran_2; pfam12848 439235007456 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 439235007457 Uncharacterized conserved protein [Function unknown]; Region: COG4198 439235007458 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 439235007459 translation initiation factor Sui1; Validated; Region: PRK06824 439235007460 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 439235007461 putative rRNA binding site [nucleotide binding]; other site 439235007462 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 439235007463 Transposase; Region: DEDD_Tnp_IS110; pfam01548 439235007464 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 439235007465 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 439235007466 BON domain; Region: BON; pfam04972 439235007467 Sensory domain found in PocR; Region: PocR; pfam10114 439235007468 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 439235007469 PAS domain S-box; Region: sensory_box; TIGR00229 439235007470 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 439235007471 putative active site [active] 439235007472 heme pocket [chemical binding]; other site 439235007473 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235007474 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 439235007475 putative active site [active] 439235007476 heme pocket [chemical binding]; other site 439235007477 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 439235007478 dimer interface [polypeptide binding]; other site 439235007479 phosphorylation site [posttranslational modification] 439235007480 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 439235007481 ATP binding site [chemical binding]; other site 439235007482 Mg2+ binding site [ion binding]; other site 439235007483 G-X-G motif; other site 439235007484 Response regulator receiver domain; Region: Response_reg; pfam00072 439235007485 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 439235007486 active site 439235007487 phosphorylation site [posttranslational modification] 439235007488 intermolecular recognition site; other site 439235007489 dimerization interface [polypeptide binding]; other site 439235007490 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 439235007491 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235007492 putative active site [active] 439235007493 heme pocket [chemical binding]; other site 439235007494 histidine kinase; Provisional; Region: PRK13557 439235007495 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 439235007496 putative active site [active] 439235007497 heme pocket [chemical binding]; other site 439235007498 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 439235007499 dimer interface [polypeptide binding]; other site 439235007500 phosphorylation site [posttranslational modification] 439235007501 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 439235007502 ATP binding site [chemical binding]; other site 439235007503 Mg2+ binding site [ion binding]; other site 439235007504 G-X-G motif; other site 439235007505 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 439235007506 active site 439235007507 phosphorylation site [posttranslational modification] 439235007508 intermolecular recognition site; other site 439235007509 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235007510 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235007511 enoyl-CoA hydratase; Provisional; Region: PRK08260 439235007512 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 439235007513 substrate binding site [chemical binding]; other site 439235007514 oxyanion hole (OAH) forming residues; other site 439235007515 trimer interface [polypeptide binding]; other site 439235007516 Transposase [DNA replication, recombination, and repair]; Region: COG5421 439235007517 Cache domain; Region: Cache_1; pfam02743 439235007518 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 439235007519 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 439235007520 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 439235007521 FeS/SAM binding site; other site 439235007522 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 439235007523 B12 binding site [chemical binding]; other site 439235007524 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 439235007525 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 439235007526 FeS/SAM binding site; other site 439235007527 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 439235007528 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 439235007529 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 439235007530 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 439235007531 FeS/SAM binding site; other site 439235007532 active site 439235007533 catalytic triad [active] 439235007534 oxyanion hole [active] 439235007535 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 439235007536 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235007537 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 439235007538 binding surface 439235007539 TPR motif; other site 439235007540 TPR repeat; Region: TPR_11; pfam13414 439235007541 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 439235007542 binding surface 439235007543 TPR motif; other site 439235007544 TPR repeat; Region: TPR_11; pfam13414 439235007545 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 439235007546 dimerization interface [polypeptide binding]; other site 439235007547 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 439235007548 dimer interface [polypeptide binding]; other site 439235007549 phosphorylation site [posttranslational modification] 439235007550 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 439235007551 ATP binding site [chemical binding]; other site 439235007552 Mg2+ binding site [ion binding]; other site 439235007553 G-X-G motif; other site 439235007554 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 439235007555 active site 439235007556 phosphorylation site [posttranslational modification] 439235007557 intermolecular recognition site; other site 439235007558 dimerization interface [polypeptide binding]; other site 439235007559 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 439235007560 Response regulator receiver domain; Region: Response_reg; pfam00072 439235007561 active site 439235007562 phosphorylation site [posttranslational modification] 439235007563 intermolecular recognition site; other site 439235007564 dimerization interface [polypeptide binding]; other site 439235007565 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 439235007566 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 439235007567 binding surface 439235007568 TPR motif; other site 439235007569 TPR repeat; Region: TPR_11; pfam13414 439235007570 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 439235007571 binding surface 439235007572 TPR motif; other site 439235007573 TPR repeat; Region: TPR_11; pfam13414 439235007574 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 439235007575 binding surface 439235007576 TPR motif; other site 439235007577 TPR repeat; Region: TPR_11; pfam13414 439235007578 TPR repeat; Region: TPR_11; pfam13414 439235007579 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 439235007580 binding surface 439235007581 TPR motif; other site 439235007582 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 439235007583 binding surface 439235007584 TPR motif; other site 439235007585 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235007586 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 439235007587 TPR repeat; Region: TPR_11; pfam13414 439235007588 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 439235007589 TPR motif; other site 439235007590 binding surface 439235007591 TPR repeat; Region: TPR_11; pfam13414 439235007592 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 439235007593 binding surface 439235007594 TPR motif; other site 439235007595 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235007596 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 439235007597 putative active site [active] 439235007598 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 439235007599 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 439235007600 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 439235007601 UbiA prenyltransferase family; Region: UbiA; pfam01040 439235007602 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 439235007603 Protein of unknown function (DUF4125); Region: DUF4125; pfam13526 439235007604 DctM-like transporters; Region: DctM; pfam06808 439235007605 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 439235007606 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 439235007607 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 439235007608 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 439235007609 FMN binding site [chemical binding]; other site 439235007610 substrate binding site [chemical binding]; other site 439235007611 putative catalytic residue [active] 439235007612 enoyl-CoA hydratase; Provisional; Region: PRK06127 439235007613 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 439235007614 substrate binding site [chemical binding]; other site 439235007615 oxyanion hole (OAH) forming residues; other site 439235007616 trimer interface [polypeptide binding]; other site 439235007617 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 439235007618 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 439235007619 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 439235007620 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 439235007621 metal ion-dependent adhesion site (MIDAS); other site 439235007622 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 439235007623 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 439235007624 Walker A motif; other site 439235007625 ATP binding site [chemical binding]; other site 439235007626 Walker B motif; other site 439235007627 arginine finger; other site 439235007628 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 439235007629 BssC/TutF protein; Region: BssC_TutF; pfam08201 439235007630 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 439235007631 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 439235007632 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 439235007633 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 439235007634 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 439235007635 4Fe-4S binding domain; Region: Fer4; pfam00037 439235007636 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 439235007637 FeS/SAM binding site; other site 439235007638 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 439235007639 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 439235007640 catalytic triad [active] 439235007641 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 439235007642 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 439235007643 active site 439235007644 catalytic triad [active] 439235007645 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 439235007646 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 439235007647 Walker A motif; other site 439235007648 ATP binding site [chemical binding]; other site 439235007649 Walker B motif; other site 439235007650 arginine finger; other site 439235007651 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 439235007652 TPR motif; other site 439235007653 TPR repeat; Region: TPR_11; pfam13414 439235007654 binding surface 439235007655 TPR repeat; Region: TPR_11; pfam13414 439235007656 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 439235007657 binding surface 439235007658 TPR motif; other site 439235007659 TPR repeat; Region: TPR_11; pfam13414 439235007660 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 439235007661 binding surface 439235007662 TPR motif; other site 439235007663 TPR repeat; Region: TPR_11; pfam13414 439235007664 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 439235007665 binding surface 439235007666 TPR motif; other site 439235007667 TPR repeat; Region: TPR_11; pfam13414 439235007668 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 439235007669 binding surface 439235007670 TPR repeat; Region: TPR_11; pfam13414 439235007671 TPR motif; other site 439235007672 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 439235007673 TPR motif; other site 439235007674 TPR repeat; Region: TPR_11; pfam13414 439235007675 binding surface 439235007676 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 439235007677 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 439235007678 Mechanosensitive ion channel; Region: MS_channel; pfam00924 439235007679 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 439235007680 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 439235007681 active site 439235007682 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 439235007683 dimer interface [polypeptide binding]; other site 439235007684 substrate binding site [chemical binding]; other site 439235007685 catalytic residues [active] 439235007686 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 439235007687 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 439235007688 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 439235007689 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 439235007690 Sel1-like repeats; Region: SEL1; smart00671 439235007691 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 439235007692 Sel1-like repeats; Region: SEL1; smart00671 439235007693 Sel1-like repeats; Region: SEL1; smart00671 439235007694 TPR repeat; Region: TPR_11; pfam13414 439235007695 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 439235007696 TPR motif; other site 439235007697 binding surface 439235007698 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 439235007699 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 439235007700 binding surface 439235007701 TPR motif; other site 439235007702 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 439235007703 binding surface 439235007704 TPR motif; other site 439235007705 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 439235007706 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 439235007707 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 439235007708 FeS/SAM binding site; other site 439235007709 B12 binding domain; Region: B12-binding; pfam02310 439235007710 B12 binding site [chemical binding]; other site 439235007711 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 439235007712 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 439235007713 FeS/SAM binding site; other site 439235007714 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 439235007715 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235007716 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 439235007717 binding surface 439235007718 TPR motif; other site 439235007719 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235007720 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 439235007721 binding surface 439235007722 TPR motif; other site 439235007723 TPR repeat; Region: TPR_11; pfam13414 439235007724 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 439235007725 Ligand binding site; other site 439235007726 Putative Catalytic site; other site 439235007727 DXD motif; other site 439235007728 Uncharacterized conserved protein (DUF2304); Region: DUF2304; cl01034 439235007729 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439235007730 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 439235007731 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439235007732 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 439235007733 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235007734 AAA domain; Region: AAA_21; pfam13304 439235007735 Walker A/P-loop; other site 439235007736 ATP binding site [chemical binding]; other site 439235007737 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; cd05709 439235007738 Peptidase family M50; Region: Peptidase_M50; pfam02163 439235007739 active site 439235007740 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 439235007741 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 439235007742 active site 439235007743 substrate-binding site [chemical binding]; other site 439235007744 metal-binding site [ion binding] 439235007745 ATP binding site [chemical binding]; other site 439235007746 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 439235007747 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 439235007748 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235007749 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 439235007750 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 439235007751 dimer interface [polypeptide binding]; other site 439235007752 PYR/PP interface [polypeptide binding]; other site 439235007753 TPP binding site [chemical binding]; other site 439235007754 substrate binding site [chemical binding]; other site 439235007755 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 439235007756 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 439235007757 TPP-binding site [chemical binding]; other site 439235007758 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 439235007759 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 439235007760 FG-GAP repeat; Region: FG-GAP_2; pfam14312 439235007761 FG-GAP repeat; Region: FG-GAP_2; pfam14312 439235007762 DNA methylase; Region: N6_N4_Mtase; cl17433 439235007763 DNA methylase; Region: N6_N4_Mtase; cl17433 439235007764 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 439235007765 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439235007766 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 439235007767 putative substrate translocation pore; other site 439235007768 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 439235007769 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 439235007770 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235007771 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 439235007772 Response regulator receiver domain; Region: Response_reg; pfam00072 439235007773 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 439235007774 active site 439235007775 phosphorylation site [posttranslational modification] 439235007776 intermolecular recognition site; other site 439235007777 dimerization interface [polypeptide binding]; other site 439235007778 FOG: CBS domain [General function prediction only]; Region: COG0517 439235007779 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 439235007780 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 439235007781 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 439235007782 transmembrane helices; other site 439235007783 Response regulator receiver domain; Region: Response_reg; pfam00072 439235007784 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 439235007785 active site 439235007786 phosphorylation site [posttranslational modification] 439235007787 intermolecular recognition site; other site 439235007788 dimerization interface [polypeptide binding]; other site 439235007789 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 439235007790 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 439235007791 dimer interface [polypeptide binding]; other site 439235007792 phosphorylation site [posttranslational modification] 439235007793 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 439235007794 ATP binding site [chemical binding]; other site 439235007795 G-X-G motif; other site 439235007796 CHASE3 domain; Region: CHASE3; cl05000 439235007797 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 439235007798 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 439235007799 dimer interface [polypeptide binding]; other site 439235007800 phosphorylation site [posttranslational modification] 439235007801 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 439235007802 ATP binding site [chemical binding]; other site 439235007803 Mg2+ binding site [ion binding]; other site 439235007804 G-X-G motif; other site 439235007805 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 439235007806 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 439235007807 active site 439235007808 phosphorylation site [posttranslational modification] 439235007809 intermolecular recognition site; other site 439235007810 dimerization interface [polypeptide binding]; other site 439235007811 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 439235007812 Walker A motif; other site 439235007813 ATP binding site [chemical binding]; other site 439235007814 Walker B motif; other site 439235007815 arginine finger; other site 439235007816 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235007817 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235007818 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 439235007819 active site 439235007820 phosphorylation site [posttranslational modification] 439235007821 intermolecular recognition site; other site 439235007822 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 439235007823 dimer interface [polypeptide binding]; other site 439235007824 phosphorylation site [posttranslational modification] 439235007825 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 439235007826 ATP binding site [chemical binding]; other site 439235007827 Mg2+ binding site [ion binding]; other site 439235007828 G-X-G motif; other site 439235007829 Response regulator receiver domain; Region: Response_reg; pfam00072 439235007830 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 439235007831 active site 439235007832 phosphorylation site [posttranslational modification] 439235007833 intermolecular recognition site; other site 439235007834 dimerization interface [polypeptide binding]; other site 439235007835 Response regulator receiver domain; Region: Response_reg; pfam00072 439235007836 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 439235007837 active site 439235007838 phosphorylation site [posttranslational modification] 439235007839 intermolecular recognition site; other site 439235007840 dimerization interface [polypeptide binding]; other site 439235007841 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 439235007842 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 439235007843 transmembrane helices; other site 439235007844 Protein of unknown function DUF84; Region: NTPase_I-T; cl00866 439235007845 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 439235007846 active site 439235007847 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235007848 phosphorylation site [posttranslational modification] 439235007849 intermolecular recognition site; other site 439235007850 dimerization interface [polypeptide binding]; other site 439235007851 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 439235007852 dimer interface [polypeptide binding]; other site 439235007853 phosphorylation site [posttranslational modification] 439235007854 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 439235007855 ATP binding site [chemical binding]; other site 439235007856 Mg2+ binding site [ion binding]; other site 439235007857 G-X-G motif; other site 439235007858 Response regulator receiver domain; Region: Response_reg; pfam00072 439235007859 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 439235007860 active site 439235007861 phosphorylation site [posttranslational modification] 439235007862 intermolecular recognition site; other site 439235007863 dimerization interface [polypeptide binding]; other site 439235007864 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439235007865 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439235007866 metal binding site [ion binding]; metal-binding site 439235007867 active site 439235007868 I-site; other site 439235007869 Transcriptional regulators [Transcription]; Region: MarR; COG1846 439235007870 MarR family; Region: MarR_2; pfam12802 439235007871 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 439235007872 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 439235007873 putative substrate translocation pore; other site 439235007874 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 439235007875 PAS domain; Region: PAS_9; pfam13426 439235007876 putative active site [active] 439235007877 heme pocket [chemical binding]; other site 439235007878 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 439235007879 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 439235007880 Walker A motif; other site 439235007881 ATP binding site [chemical binding]; other site 439235007882 Walker B motif; other site 439235007883 arginine finger; other site 439235007884 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235007885 Dinitrogenase iron-molybdenum cofactor; Region: Nitro_FeMo-Co; pfam02579 439235007886 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 439235007887 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 439235007888 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 439235007889 P loop nucleotide binding; other site 439235007890 switch II; other site 439235007891 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 439235007892 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 439235007893 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 439235007894 switch II; other site 439235007895 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 439235007896 CGGC domain; Region: CGGC; cl02356 439235007897 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 439235007898 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 439235007899 trimerization site [polypeptide binding]; other site 439235007900 active site 439235007901 PAS domain; Region: PAS_9; pfam13426 439235007902 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235007903 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 439235007904 dimer interface [polypeptide binding]; other site 439235007905 phosphorylation site [posttranslational modification] 439235007906 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 439235007907 ATP binding site [chemical binding]; other site 439235007908 Mg2+ binding site [ion binding]; other site 439235007909 G-X-G motif; other site 439235007910 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 439235007911 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 439235007912 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 439235007913 catalytic loop [active] 439235007914 iron binding site [ion binding]; other site 439235007915 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 439235007916 dimer interface [polypeptide binding]; other site 439235007917 [2Fe-2S] cluster binding site [ion binding]; other site 439235007918 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 439235007919 SLBB domain; Region: SLBB; pfam10531 439235007920 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 439235007921 4Fe-4S binding domain; Region: Fer4; pfam00037 439235007922 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 439235007923 4Fe-4S binding domain; Region: Fer4; pfam00037 439235007924 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 439235007925 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 439235007926 putative dimer interface [polypeptide binding]; other site 439235007927 [2Fe-2S] cluster binding site [ion binding]; other site 439235007928 PAS fold; Region: PAS; pfam00989 439235007929 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 439235007930 PAS domain; Region: PAS_9; pfam13426 439235007931 putative active site [active] 439235007932 heme pocket [chemical binding]; other site 439235007933 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 439235007934 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 439235007935 Walker A motif; other site 439235007936 ATP binding site [chemical binding]; other site 439235007937 Walker B motif; other site 439235007938 arginine finger; other site 439235007939 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235007940 PBP superfamily domain; Region: PBP_like_2; pfam12849 439235007941 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 439235007942 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 439235007943 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 439235007944 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 439235007945 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 439235007946 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 439235007947 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 439235007948 putative substrate-binding site; other site 439235007949 nickel binding site [ion binding]; other site 439235007950 HupF/HypC family; Region: HupF_HypC; pfam01455 439235007951 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 439235007952 Protein export membrane protein; Region: SecD_SecF; cl14618 439235007953 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 439235007954 dimer interface [polypeptide binding]; other site 439235007955 phosphorylation site [posttranslational modification] 439235007956 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 439235007957 ATP binding site [chemical binding]; other site 439235007958 Mg2+ binding site [ion binding]; other site 439235007959 G-X-G motif; other site 439235007960 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 439235007961 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 439235007962 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 439235007963 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235007964 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 439235007965 putative active site [active] 439235007966 heme pocket [chemical binding]; other site 439235007967 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235007968 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 439235007969 putative active site [active] 439235007970 heme pocket [chemical binding]; other site 439235007971 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 439235007972 dimer interface [polypeptide binding]; other site 439235007973 phosphorylation site [posttranslational modification] 439235007974 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 439235007975 ATP binding site [chemical binding]; other site 439235007976 Mg2+ binding site [ion binding]; other site 439235007977 G-X-G motif; other site 439235007978 response regulator FixJ; Provisional; Region: fixJ; PRK09390 439235007979 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 439235007980 dockerin binding interface; other site 439235007981 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 439235007982 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 439235007983 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 439235007984 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 439235007985 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 439235007986 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 439235007987 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 439235007988 RHS Repeat; Region: RHS_repeat; pfam05593 439235007989 RHS Repeat; Region: RHS_repeat; pfam05593 439235007990 RHS Repeat; Region: RHS_repeat; pfam05593 439235007991 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 439235007992 RHS Repeat; Region: RHS_repeat; pfam05593 439235007993 RHS Repeat; Region: RHS_repeat; pfam05593 439235007994 RHS Repeat; Region: RHS_repeat; cl11982 439235007995 RHS Repeat; Region: RHS_repeat; pfam05593 439235007996 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 439235007997 RHS Repeat; Region: RHS_repeat; cl11982 439235007998 RHS Repeat; Region: RHS_repeat; pfam05593 439235007999 RHS Repeat; Region: RHS_repeat; cl11982 439235008000 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 439235008001 Uncharacterized conserved protein [Function unknown]; Region: COG3391 439235008002 Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Region: PKD; smart00089 439235008003 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 439235008004 FOG: PKD repeat [General function prediction only]; Region: COG3291 439235008005 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 439235008006 Uncharacterized conserved protein [Function unknown]; Region: COG3391 439235008007 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 439235008008 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 439235008009 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 439235008010 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 439235008011 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 439235008012 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 439235008013 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 439235008014 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 439235008015 FOG: PKD repeat [General function prediction only]; Region: COG3291 439235008016 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 439235008017 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 439235008018 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 439235008019 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 439235008020 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 439235008021 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 439235008022 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 439235008023 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 439235008024 Walker A/P-loop; other site 439235008025 ATP binding site [chemical binding]; other site 439235008026 Q-loop/lid; other site 439235008027 ABC transporter signature motif; other site 439235008028 Walker B; other site 439235008029 D-loop; other site 439235008030 H-loop/switch region; other site 439235008031 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 439235008032 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 439235008033 dimer interface [polypeptide binding]; other site 439235008034 conserved gate region; other site 439235008035 putative PBP binding loops; other site 439235008036 ABC-ATPase subunit interface; other site 439235008037 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 439235008038 dimer interface [polypeptide binding]; other site 439235008039 conserved gate region; other site 439235008040 putative PBP binding loops; other site 439235008041 ABC-ATPase subunit interface; other site 439235008042 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 439235008043 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 439235008044 glyoxylate reductase; Reviewed; Region: PRK13243 439235008045 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 439235008046 dimerization interface [polypeptide binding]; other site 439235008047 ligand binding site [chemical binding]; other site 439235008048 NADP binding site [chemical binding]; other site 439235008049 catalytic site [active] 439235008050 Protein of unknown function (DUF342); Region: DUF342; pfam03961 439235008051 Protein of unknown function (DUF342); Region: DUF342; pfam03961 439235008052 haemagglutination activity domain; Region: Haemagg_act; cl05436 439235008053 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 439235008054 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 439235008055 Surface antigen; Region: Bac_surface_Ag; pfam01103 439235008056 DDE superfamily endonuclease; Region: DDE_5; cl17874 439235008057 PAS domain S-box; Region: sensory_box; TIGR00229 439235008058 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 439235008059 putative active site [active] 439235008060 heme pocket [chemical binding]; other site 439235008061 PAS domain S-box; Region: sensory_box; TIGR00229 439235008062 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 439235008063 putative active site [active] 439235008064 heme pocket [chemical binding]; other site 439235008065 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235008066 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 439235008067 putative active site [active] 439235008068 heme pocket [chemical binding]; other site 439235008069 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 439235008070 dimer interface [polypeptide binding]; other site 439235008071 phosphorylation site [posttranslational modification] 439235008072 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 439235008073 ATP binding site [chemical binding]; other site 439235008074 Mg2+ binding site [ion binding]; other site 439235008075 G-X-G motif; other site 439235008076 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235008077 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 439235008078 active site 439235008079 phosphorylation site [posttranslational modification] 439235008080 intermolecular recognition site; other site 439235008081 dimerization interface [polypeptide binding]; other site 439235008082 Cysteine protease [Posttranslational modification, protein turnover, chaperones]; Region: COG4870 439235008083 Peptidase C1A subfamily (MEROPS database nomenclature); composed of cysteine peptidases (CPs) similar to papain, including the mammalian CPs (cathepsins B, C, F, H, L, K, O, S, V, X and W). Papain is an endopeptidase with specific substrate preferences; Region: Peptidase_C1A; cd02248 439235008084 active site 439235008085 S2 subsite; other site 439235008086 Propeptide_C25; Region: Propeptide_C25; pfam08126 439235008087 uncharacterized subgroup of the Peptidase C25 family N-terminal domain; Region: Peptidase_C25_N_2; cd10915 439235008088 putative active site [active] 439235008089 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 439235008090 Ca2+ binding site [ion binding]; other site 439235008091 Domain of unknown function DUF11; Region: DUF11; pfam01345 439235008092 PAS domain S-box; Region: sensory_box; TIGR00229 439235008093 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 439235008094 putative active site [active] 439235008095 heme pocket [chemical binding]; other site 439235008096 PAS domain S-box; Region: sensory_box; TIGR00229 439235008097 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 439235008098 putative active site [active] 439235008099 heme pocket [chemical binding]; other site 439235008100 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235008101 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 439235008102 dimer interface [polypeptide binding]; other site 439235008103 phosphorylation site [posttranslational modification] 439235008104 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 439235008105 ATP binding site [chemical binding]; other site 439235008106 Mg2+ binding site [ion binding]; other site 439235008107 G-X-G motif; other site 439235008108 Response regulator receiver domain; Region: Response_reg; pfam00072 439235008109 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 439235008110 active site 439235008111 phosphorylation site [posttranslational modification] 439235008112 intermolecular recognition site; other site 439235008113 dimerization interface [polypeptide binding]; other site 439235008114 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 439235008115 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 439235008116 non-specific DNA binding site [nucleotide binding]; other site 439235008117 salt bridge; other site 439235008118 sequence-specific DNA binding site [nucleotide binding]; other site 439235008119 Predicted transcriptional regulator [Transcription]; Region: COG2932 439235008120 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 439235008121 Catalytic site [active] 439235008122 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 439235008123 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 439235008124 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 439235008125 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 439235008126 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 439235008127 FeS/SAM binding site; other site 439235008128 Transposase IS200 like; Region: Y1_Tnp; cl00848 439235008129 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 439235008130 ATP cone domain; Region: ATP-cone; pfam03477 439235008131 Class III ribonucleotide reductase; Region: RNR_III; cd01675 439235008132 effector binding site; other site 439235008133 active site 439235008134 Zn binding site [ion binding]; other site 439235008135 glycine loop; other site 439235008136 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 439235008137 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 439235008138 acyl-activating enzyme (AAE) consensus motif; other site 439235008139 putative AMP binding site [chemical binding]; other site 439235008140 putative active site [active] 439235008141 putative CoA binding site [chemical binding]; other site 439235008142 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 439235008143 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439235008144 putative substrate translocation pore; other site 439235008145 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 439235008146 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 439235008147 DEAD-like helicases superfamily; Region: DEXDc; smart00487 439235008148 ATP binding site [chemical binding]; other site 439235008149 Mg++ binding site [ion binding]; other site 439235008150 motif III; other site 439235008151 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 439235008152 nucleotide binding region [chemical binding]; other site 439235008153 ATP-binding site [chemical binding]; other site 439235008154 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235008155 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 439235008156 active site 439235008157 phosphorylation site [posttranslational modification] 439235008158 intermolecular recognition site; other site 439235008159 dimerization interface [polypeptide binding]; other site 439235008160 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 439235008161 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235008162 Zn2+ binding site [ion binding]; other site 439235008163 Mg2+ binding site [ion binding]; other site 439235008164 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 439235008165 Acyltransferase family; Region: Acyl_transf_3; pfam01757 439235008166 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 439235008167 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235008168 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235008169 active site 439235008170 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235008171 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235008172 active site 439235008173 Protein of unknown function (DUF3781); Region: DUF3781; pfam12636 439235008174 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_19; cd04678 439235008175 nudix motif; other site 439235008176 Response regulator receiver domain; Region: Response_reg; pfam00072 439235008177 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 439235008178 active site 439235008179 phosphorylation site [posttranslational modification] 439235008180 intermolecular recognition site; other site 439235008181 dimerization interface [polypeptide binding]; other site 439235008182 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 439235008183 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_2; cd08582 439235008184 putative active site [active] 439235008185 catalytic site [active] 439235008186 putative metal binding site [ion binding]; other site 439235008187 acetyl-CoA synthetase; Provisional; Region: PRK00174 439235008188 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 439235008189 active site 439235008190 CoA binding site [chemical binding]; other site 439235008191 acyl-activating enzyme (AAE) consensus motif; other site 439235008192 AMP binding site [chemical binding]; other site 439235008193 acetate binding site [chemical binding]; other site 439235008194 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 439235008195 Mechanosensitive ion channel; Region: MS_channel; pfam00924 439235008196 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 439235008197 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 439235008198 dimer interface [polypeptide binding]; other site 439235008199 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235008200 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235008201 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 439235008202 putative hydrophobic ligand binding site [chemical binding]; other site 439235008203 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439235008204 TIGR01777 family protein; Region: yfcH 439235008205 NAD(P) binding site [chemical binding]; other site 439235008206 active site 439235008207 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 439235008208 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 439235008209 putative dimer interface [polypeptide binding]; other site 439235008210 Ferredoxin [Energy production and conversion]; Region: COG1146 439235008211 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 439235008212 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 439235008213 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 439235008214 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235008215 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235008216 Zn2+ binding site [ion binding]; other site 439235008217 Mg2+ binding site [ion binding]; other site 439235008218 hybrid cluster protein; Provisional; Region: PRK05290 439235008219 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 439235008220 ACS interaction site; other site 439235008221 CODH interaction site; other site 439235008222 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 439235008223 hybrid metal cluster; other site 439235008224 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 439235008225 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 439235008226 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 439235008227 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 439235008228 HlyD family secretion protein; Region: HlyD_3; pfam13437 439235008229 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 439235008230 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 439235008231 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 439235008232 active site residue [active] 439235008233 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 439235008234 active site residue [active] 439235008235 photolyase PhrII; Region: phr2; TIGR00591 439235008236 DNA photolyase; Region: DNA_photolyase; pfam00875 439235008237 Protein of unknown function (DUF523); Region: DUF523; pfam04463 439235008238 Uncharacterized conserved protein [Function unknown]; Region: COG3272 439235008239 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 439235008240 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 439235008241 CoenzymeA binding site [chemical binding]; other site 439235008242 subunit interaction site [polypeptide binding]; other site 439235008243 PHB binding site; other site 439235008244 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 439235008245 dimer interface [polypeptide binding]; other site 439235008246 putative CheW interface [polypeptide binding]; other site 439235008247 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 439235008248 putative CheA interaction surface; other site 439235008249 Response regulator receiver domain; Region: Response_reg; pfam00072 439235008250 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 439235008251 active site 439235008252 phosphorylation site [posttranslational modification] 439235008253 intermolecular recognition site; other site 439235008254 dimerization interface [polypeptide binding]; other site 439235008255 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 439235008256 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 439235008257 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 439235008258 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 439235008259 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 439235008260 diiron binding motif [ion binding]; other site 439235008261 Predicted transcriptional regulator [Transcription]; Region: COG1959 439235008262 Transcriptional regulator; Region: Rrf2; pfam02082 439235008263 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 439235008264 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 439235008265 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 439235008266 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 439235008267 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 439235008268 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 439235008269 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235008270 Zn2+ binding site [ion binding]; other site 439235008271 Mg2+ binding site [ion binding]; other site 439235008272 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235008273 Zn2+ binding site [ion binding]; other site 439235008274 Mg2+ binding site [ion binding]; other site 439235008275 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 439235008276 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 439235008277 putative active site [active] 439235008278 heme pocket [chemical binding]; other site 439235008279 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 439235008280 dimer interface [polypeptide binding]; other site 439235008281 phosphorylation site [posttranslational modification] 439235008282 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 439235008283 ATP binding site [chemical binding]; other site 439235008284 Mg2+ binding site [ion binding]; other site 439235008285 G-X-G motif; other site 439235008286 Response regulator receiver domain; Region: Response_reg; pfam00072 439235008287 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 439235008288 active site 439235008289 phosphorylation site [posttranslational modification] 439235008290 intermolecular recognition site; other site 439235008291 dimerization interface [polypeptide binding]; other site 439235008292 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 439235008293 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 439235008294 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 439235008295 P-loop; other site 439235008296 Magnesium ion binding site [ion binding]; other site 439235008297 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 439235008298 Magnesium ion binding site [ion binding]; other site 439235008299 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 439235008300 metal binding site 2 [ion binding]; metal-binding site 439235008301 putative DNA binding helix; other site 439235008302 metal binding site 1 [ion binding]; metal-binding site 439235008303 dimer interface [polypeptide binding]; other site 439235008304 structural Zn2+ binding site [ion binding]; other site 439235008305 Rubrerythrin [Energy production and conversion]; Region: COG1592 439235008306 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 439235008307 binuclear metal center [ion binding]; other site 439235008308 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 439235008309 iron binding site [ion binding]; other site 439235008310 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 439235008311 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 439235008312 non-heme iron binding site [ion binding]; other site 439235008313 dimer interface [polypeptide binding]; other site 439235008314 Superoxide reductase-like (SORL) domain, class I; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_Dfx_classI; cd03171 439235008315 non-heme iron binding site [ion binding]; other site 439235008316 dimer interface [polypeptide binding]; other site 439235008317 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 439235008318 iron binding site [ion binding]; other site 439235008319 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 439235008320 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 439235008321 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 439235008322 heme-binding residues [chemical binding]; other site 439235008323 Rubredoxin [Energy production and conversion]; Region: COG1773 439235008324 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 439235008325 iron binding site [ion binding]; other site 439235008326 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 439235008327 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 439235008328 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 439235008329 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 439235008330 HEAT repeats; Region: HEAT_2; pfam13646 439235008331 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 439235008332 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 439235008333 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 439235008334 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 439235008335 ACS interaction site; other site 439235008336 CODH interaction site; other site 439235008337 metal cluster binding site [ion binding]; other site 439235008338 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 439235008339 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 439235008340 HDOD domain; Region: HDOD; pfam08668 439235008341 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235008342 Zn2+ binding site [ion binding]; other site 439235008343 Mg2+ binding site [ion binding]; other site 439235008344 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 439235008345 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 439235008346 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 439235008347 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 439235008348 ABC-ATPase subunit interface; other site 439235008349 dimer interface [polypeptide binding]; other site 439235008350 putative PBP binding regions; other site 439235008351 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 439235008352 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 439235008353 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 439235008354 trimerization site [polypeptide binding]; other site 439235008355 active site 439235008356 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 439235008357 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439235008358 putative substrate translocation pore; other site 439235008359 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 439235008360 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 439235008361 active site 439235008362 substrate binding site [chemical binding]; other site 439235008363 metal binding site [ion binding]; metal-binding site 439235008364 Bacitracin resistance protein BacA; Region: BacA; pfam02673 439235008365 Arylsulfotransferase (ASST); Region: Arylsulfotran_2; pfam14269 439235008366 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 439235008367 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 439235008368 thiamine phosphate binding site [chemical binding]; other site 439235008369 active site 439235008370 pyrophosphate binding site [ion binding]; other site 439235008371 ribulose-1,5-biphosphate synthetase; Provisional; Region: PRK04176 439235008372 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439235008373 TM2 domain; Region: TM2; cl00984 439235008374 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 439235008375 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 439235008376 Soluble P-type ATPase [General function prediction only]; Region: COG4087 439235008377 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 439235008378 dimerization interface [polypeptide binding]; other site 439235008379 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 439235008380 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 439235008381 dimer interface [polypeptide binding]; other site 439235008382 putative CheW interface [polypeptide binding]; other site 439235008383 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 439235008384 Tetratricopeptide repeat; Region: TPR_18; pfam13512 439235008385 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 439235008386 TPR motif; other site 439235008387 binding surface 439235008388 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 439235008389 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 439235008390 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 439235008391 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 439235008392 catalytic residues [active] 439235008393 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 439235008394 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 439235008395 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 439235008396 FeS/SAM binding site; other site 439235008397 TRAM domain; Region: TRAM; pfam01938 439235008398 Bifunctional nuclease; Region: DNase-RNase; pfam02577 439235008399 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 439235008400 active site 439235008401 hypothetical protein; Provisional; Region: PRK06361 439235008402 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 439235008403 Response regulator receiver domain; Region: Response_reg; pfam00072 439235008404 active site 439235008405 phosphorylation site [posttranslational modification] 439235008406 intermolecular recognition site; other site 439235008407 dimerization interface [polypeptide binding]; other site 439235008408 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 439235008409 dockerin binding interface; other site 439235008410 aspartate carbamoyltransferase; Region: PLN02527 439235008411 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 439235008412 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 439235008413 Pyrobaculum aerophilum PAE1087 and related proteins, metallophosphatase domain; Region: MPP_PAE1087; cd07392 439235008414 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 439235008415 putative active site [active] 439235008416 putative metal binding site [ion binding]; other site 439235008417 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 439235008418 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 439235008419 motif II; other site 439235008420 Response regulator receiver domain; Region: Response_reg; pfam00072 439235008421 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 439235008422 active site 439235008423 phosphorylation site [posttranslational modification] 439235008424 intermolecular recognition site; other site 439235008425 dimerization interface [polypeptide binding]; other site 439235008426 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 439235008427 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 439235008428 putative active site [active] 439235008429 heme pocket [chemical binding]; other site 439235008430 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 439235008431 dimer interface [polypeptide binding]; other site 439235008432 phosphorylation site [posttranslational modification] 439235008433 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 439235008434 ATP binding site [chemical binding]; other site 439235008435 Mg2+ binding site [ion binding]; other site 439235008436 G-X-G motif; other site 439235008437 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 439235008438 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 439235008439 putative active site [active] 439235008440 heme pocket [chemical binding]; other site 439235008441 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 439235008442 dimer interface [polypeptide binding]; other site 439235008443 phosphorylation site [posttranslational modification] 439235008444 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 439235008445 ATP binding site [chemical binding]; other site 439235008446 Mg2+ binding site [ion binding]; other site 439235008447 G-X-G motif; other site 439235008448 4Fe-4S binding domain; Region: Fer4; pfam00037 439235008449 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235008450 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235008451 WHG domain; Region: WHG; pfam13305 439235008452 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 439235008453 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 439235008454 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 439235008455 Predicted membrane protein [Function unknown]; Region: COG3462 439235008456 Short C-terminal domain; Region: SHOCT; pfam09851 439235008457 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 439235008458 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 439235008459 catalytic residues [active] 439235008460 catalytic nucleophile [active] 439235008461 Recombinase; Region: Recombinase; pfam07508 439235008462 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 439235008463 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 439235008464 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 439235008465 active site 439235008466 DNA binding site [nucleotide binding] 439235008467 Int/Topo IB signature motif; other site 439235008468 PAS domain S-box; Region: sensory_box; TIGR00229 439235008469 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 439235008470 putative active site [active] 439235008471 heme pocket [chemical binding]; other site 439235008472 PAS domain S-box; Region: sensory_box; TIGR00229 439235008473 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 439235008474 putative active site [active] 439235008475 heme pocket [chemical binding]; other site 439235008476 PAS domain S-box; Region: sensory_box; TIGR00229 439235008477 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235008478 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 439235008479 ATP binding site [chemical binding]; other site 439235008480 Mg2+ binding site [ion binding]; other site 439235008481 G-X-G motif; other site 439235008482 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 439235008483 GAF domain; Region: GAF; pfam01590 439235008484 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439235008485 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439235008486 metal binding site [ion binding]; metal-binding site 439235008487 active site 439235008488 I-site; other site 439235008489 Phospholipid methyltransferase; Region: PEMT; cl17370 439235008490 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235008491 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235008492 Ion transport protein; Region: Ion_trans; pfam00520 439235008493 Ion channel; Region: Ion_trans_2; pfam07885 439235008494 Double zinc ribbon; Region: DZR; pfam12773 439235008495 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 439235008496 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 439235008497 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 439235008498 ligand binding site [chemical binding]; other site 439235008499 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 439235008500 ligand binding site [chemical binding]; other site 439235008501 flexible hinge region; other site 439235008502 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 439235008503 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 439235008504 active site 439235008505 putative substrate binding pocket [chemical binding]; other site 439235008506 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 439235008507 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 439235008508 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 439235008509 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 439235008510 ATP binding site [chemical binding]; other site 439235008511 putative Mg++ binding site [ion binding]; other site 439235008512 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 439235008513 nucleotide binding region [chemical binding]; other site 439235008514 ATP-binding site [chemical binding]; other site 439235008515 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 439235008516 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 439235008517 active site 439235008518 substrate binding site [chemical binding]; other site 439235008519 catalytic site [active] 439235008520 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 439235008521 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 439235008522 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 439235008523 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 439235008524 ATP-sulfurylase; Region: ATPS; cd00517 439235008525 active site 439235008526 HXXH motif; other site 439235008527 flexible loop; other site 439235008528 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 439235008529 AMP-binding domain protein; Validated; Region: PRK07529 439235008530 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235008531 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 439235008532 acyl-activating enzyme (AAE) consensus motif; other site 439235008533 putative AMP binding site [chemical binding]; other site 439235008534 putative active site [active] 439235008535 putative CoA binding site [chemical binding]; other site 439235008536 Methyltransferase domain; Region: Methyltransf_23; pfam13489 439235008537 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 439235008538 S-adenosylmethionine binding site [chemical binding]; other site 439235008539 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 439235008540 Protein of unknown function, DUF608; Region: DUF608; pfam04685 439235008541 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 439235008542 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 439235008543 trimer interface [polypeptide binding]; other site 439235008544 active site 439235008545 substrate binding site [chemical binding]; other site 439235008546 CoA binding site [chemical binding]; other site 439235008547 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 439235008548 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 439235008549 TAP-like protein; Region: Abhydrolase_4; pfam08386 439235008550 Rhomboid family; Region: Rhomboid; cl11446 439235008551 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 439235008552 DNA-binding site [nucleotide binding]; DNA binding site 439235008553 RNA-binding motif; other site 439235008554 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 439235008555 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 439235008556 ATP binding site [chemical binding]; other site 439235008557 Mg++ binding site [ion binding]; other site 439235008558 motif III; other site 439235008559 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 439235008560 nucleotide binding region [chemical binding]; other site 439235008561 ATP-binding site [chemical binding]; other site 439235008562 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 439235008563 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 439235008564 S-adenosylmethionine binding site [chemical binding]; other site 439235008565 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235008566 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235008567 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 439235008568 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 439235008569 active site pocket [active] 439235008570 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 439235008571 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 439235008572 dimerization interface [polypeptide binding]; other site 439235008573 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 439235008574 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 439235008575 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 439235008576 catalytic core [active] 439235008577 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 439235008578 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235008579 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235008580 active site 439235008581 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235008582 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235008583 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 439235008584 putative active site [active] 439235008585 putative substrate binding site [chemical binding]; other site 439235008586 ATP binding site [chemical binding]; other site 439235008587 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 439235008588 Phosphotransferase enzyme family; Region: APH; pfam01636 439235008589 putative active site [active] 439235008590 putative substrate binding site [chemical binding]; other site 439235008591 ATP binding site [chemical binding]; other site 439235008592 FAD dependent oxidoreductase; Region: DAO; pfam01266 439235008593 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 439235008594 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 439235008595 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 439235008596 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 439235008597 substrate binding site [chemical binding]; other site 439235008598 oxyanion hole (OAH) forming residues; other site 439235008599 trimer interface [polypeptide binding]; other site 439235008600 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 439235008601 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 439235008602 Ligand Binding Site [chemical binding]; other site 439235008603 putative methanogenesis marker protein 1; Region: methan_mark_1; TIGR03266 439235008604 YcaO-like family; Region: YcaO; pfam02624 439235008605 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 439235008606 binding surface 439235008607 TPR motif; other site 439235008608 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235008609 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 439235008610 binding surface 439235008611 TPR motif; other site 439235008612 TPR repeat; Region: TPR_11; pfam13414 439235008613 Uncharacterized conserved protein [Function unknown]; Region: COG2006 439235008614 Domain of unknown function (DUF362); Region: DUF362; pfam04015 439235008615 CHASE2 domain; Region: CHASE2; pfam05226 439235008616 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 439235008617 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 439235008618 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 439235008619 active site 439235008620 ATP binding site [chemical binding]; other site 439235008621 substrate binding site [chemical binding]; other site 439235008622 activation loop (A-loop); other site 439235008623 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 439235008624 Protein phosphatase 2C; Region: PP2C; pfam00481 439235008625 active site 439235008626 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 439235008627 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 439235008628 phosphopeptide binding site; other site 439235008629 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 439235008630 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 439235008631 active site 439235008632 ATP binding site [chemical binding]; other site 439235008633 substrate binding site [chemical binding]; other site 439235008634 activation loop (A-loop); other site 439235008635 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439235008636 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 439235008637 ligand binding site [chemical binding]; other site 439235008638 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 439235008639 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 439235008640 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 439235008641 GAF domain; Region: GAF; pfam01590 439235008642 PAS domain; Region: PAS_9; pfam13426 439235008643 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 439235008644 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 439235008645 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235008646 dimer interface [polypeptide binding]; other site 439235008647 phosphorylation site [posttranslational modification] 439235008648 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 439235008649 ATP binding site [chemical binding]; other site 439235008650 Mg2+ binding site [ion binding]; other site 439235008651 G-X-G motif; other site 439235008652 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235008653 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 439235008654 active site 439235008655 phosphorylation site [posttranslational modification] 439235008656 intermolecular recognition site; other site 439235008657 dimerization interface [polypeptide binding]; other site 439235008658 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 439235008659 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 439235008660 G1 box; other site 439235008661 GTP/Mg2+ binding site [chemical binding]; other site 439235008662 G2 box; other site 439235008663 Switch I region; other site 439235008664 G3 box; other site 439235008665 Switch II region; other site 439235008666 G4 box; other site 439235008667 G5 box; other site 439235008668 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 439235008669 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235008670 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 439235008671 ATP binding site [chemical binding]; other site 439235008672 Mg2+ binding site [ion binding]; other site 439235008673 G-X-G motif; other site 439235008674 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 439235008675 Response regulator receiver domain; Region: Response_reg; pfam00072 439235008676 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 439235008677 active site 439235008678 phosphorylation site [posttranslational modification] 439235008679 intermolecular recognition site; other site 439235008680 dimerization interface [polypeptide binding]; other site 439235008681 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 439235008682 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 439235008683 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 439235008684 metal ion-dependent adhesion site (MIDAS); other site 439235008685 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 439235008686 Thrombospondin type 3 repeat; Region: TSP_3; pfam02412 439235008687 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 439235008688 ligand binding site [chemical binding]; other site 439235008689 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 439235008690 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235008691 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235008692 DJ-1 family protein; Region: not_thiJ; TIGR01383 439235008693 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 439235008694 conserved cys residue [active] 439235008695 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439235008696 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 439235008697 Coenzyme A binding pocket [chemical binding]; other site 439235008698 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 439235008699 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 439235008700 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235008701 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 439235008702 dimer interface [polypeptide binding]; other site 439235008703 phosphorylation site [posttranslational modification] 439235008704 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 439235008705 ATP binding site [chemical binding]; other site 439235008706 Mg2+ binding site [ion binding]; other site 439235008707 G-X-G motif; other site 439235008708 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 439235008709 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 439235008710 PYR/PP interface [polypeptide binding]; other site 439235008711 dimer interface [polypeptide binding]; other site 439235008712 TPP binding site [chemical binding]; other site 439235008713 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 439235008714 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 439235008715 TPP-binding site; other site 439235008716 dimer interface [polypeptide binding]; other site 439235008717 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 439235008718 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 439235008719 PYR/PP interface [polypeptide binding]; other site 439235008720 dimer interface [polypeptide binding]; other site 439235008721 TPP binding site [chemical binding]; other site 439235008722 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 439235008723 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; cl01629 439235008724 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 439235008725 TPP-binding site [chemical binding]; other site 439235008726 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 439235008727 Clostripain family; Region: Peptidase_C11; pfam03415 439235008728 Clostripain family; Region: Peptidase_C11; pfam03415 439235008729 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 439235008730 Interdomain contacts; other site 439235008731 Clostripain family; Region: Peptidase_C11; pfam03415 439235008732 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 439235008733 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 439235008734 Amidohydrolase; Region: Amidohydro_4; pfam13147 439235008735 active site 439235008736 Trm112p-like protein; Region: Trm112p; cl01066 439235008737 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 439235008738 S-adenosylmethionine binding site [chemical binding]; other site 439235008739 Adenosylhomocysteinase; Provisional; Region: PTZ00075 439235008740 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 439235008741 homotetramer interface [polypeptide binding]; other site 439235008742 ligand binding site [chemical binding]; other site 439235008743 catalytic site [active] 439235008744 NAD binding site [chemical binding]; other site 439235008745 S-adenosylmethionine synthetase; Validated; Region: PRK05250 439235008746 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 439235008747 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 439235008748 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 439235008749 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 439235008750 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 439235008751 NADP binding site [chemical binding]; other site 439235008752 active site 439235008753 putative substrate binding site [chemical binding]; other site 439235008754 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 439235008755 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 439235008756 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 439235008757 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 439235008758 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 439235008759 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 439235008760 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 439235008761 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 439235008762 Transposase [DNA replication, recombination, and repair]; Region: COG5421 439235008763 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 439235008764 N-acetyl-D-glucosamine binding site [chemical binding]; other site 439235008765 catalytic residue [active] 439235008766 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 439235008767 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 439235008768 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 439235008769 active site 439235008770 catalytic tetrad [active] 439235008771 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 439235008772 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439235008773 putative cation:proton antiport protein; Provisional; Region: PRK10669 439235008774 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 439235008775 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 439235008776 TrkA-N domain; Region: TrkA_N; pfam02254 439235008777 TrkA-C domain; Region: TrkA_C; pfam02080 439235008778 Protein of unknown function, DUF488; Region: DUF488; pfam04343 439235008779 Helix-turn-helix domain; Region: HTH_18; pfam12833 439235008780 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439235008781 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 439235008782 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439235008783 substrate binding pocket [chemical binding]; other site 439235008784 membrane-bound complex binding site; other site 439235008785 hinge residues; other site 439235008786 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439235008787 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 439235008788 substrate binding pocket [chemical binding]; other site 439235008789 membrane-bound complex binding site; other site 439235008790 hinge residues; other site 439235008791 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 439235008792 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235008793 putative active site [active] 439235008794 heme pocket [chemical binding]; other site 439235008795 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 439235008796 putative active site [active] 439235008797 heme pocket [chemical binding]; other site 439235008798 GAF domain; Region: GAF_2; pfam13185 439235008799 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 439235008800 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 439235008801 dimer interface [polypeptide binding]; other site 439235008802 phosphorylation site [posttranslational modification] 439235008803 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 439235008804 ATP binding site [chemical binding]; other site 439235008805 Mg2+ binding site [ion binding]; other site 439235008806 G-X-G motif; other site 439235008807 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235008808 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 439235008809 active site 439235008810 phosphorylation site [posttranslational modification] 439235008811 intermolecular recognition site; other site 439235008812 dimerization interface [polypeptide binding]; other site 439235008813 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 439235008814 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 439235008815 conserved cys residue [active] 439235008816 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439235008817 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439235008818 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 439235008819 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_family; cd02803 439235008820 active site 439235008821 FMN binding site [chemical binding]; other site 439235008822 substrate binding site [chemical binding]; other site 439235008823 putative catalytic residue [active] 439235008824 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439235008825 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 439235008826 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439235008827 4Fe-4S binding domain; Region: Fer4; pfam00037 439235008828 hydrogenase 4 subunit H; Validated; Region: PRK08222 439235008829 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 439235008830 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 439235008831 4Fe-4S binding domain; Region: Fer4; cl02805 439235008832 thiosulfate reductase PhsA; Provisional; Region: PRK15488 439235008833 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 439235008834 putative [Fe4-S4] binding site [ion binding]; other site 439235008835 putative molybdopterin cofactor binding site [chemical binding]; other site 439235008836 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 439235008837 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 439235008838 putative molybdopterin cofactor binding site; other site 439235008839 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 439235008840 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235008841 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 439235008842 putative active site [active] 439235008843 heme pocket [chemical binding]; other site 439235008844 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 439235008845 dimer interface [polypeptide binding]; other site 439235008846 phosphorylation site [posttranslational modification] 439235008847 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 439235008848 ATP binding site [chemical binding]; other site 439235008849 Mg2+ binding site [ion binding]; other site 439235008850 G-X-G motif; other site 439235008851 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 439235008852 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 439235008853 active site 439235008854 phosphorylation site [posttranslational modification] 439235008855 intermolecular recognition site; other site 439235008856 dimerization interface [polypeptide binding]; other site 439235008857 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 439235008858 Walker A motif; other site 439235008859 ATP binding site [chemical binding]; other site 439235008860 Walker B motif; other site 439235008861 arginine finger; other site 439235008862 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 439235008863 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 439235008864 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 439235008865 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 439235008866 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 439235008867 Cl- selectivity filter; other site 439235008868 Cl- binding residues [ion binding]; other site 439235008869 pore gating glutamate residue; other site 439235008870 dimer interface [polypeptide binding]; other site 439235008871 FOG: CBS domain [General function prediction only]; Region: COG0517 439235008872 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 439235008873 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 439235008874 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 439235008875 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235008876 homodimer interface [polypeptide binding]; other site 439235008877 catalytic residue [active] 439235008878 GAF domain; Region: GAF; cl17456 439235008879 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 439235008880 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 439235008881 Walker A motif; other site 439235008882 ATP binding site [chemical binding]; other site 439235008883 Walker B motif; other site 439235008884 arginine finger; other site 439235008885 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235008886 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 439235008887 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235008888 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 439235008889 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 439235008890 non-specific DNA binding site [nucleotide binding]; other site 439235008891 salt bridge; other site 439235008892 sequence-specific DNA binding site [nucleotide binding]; other site 439235008893 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 439235008894 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 439235008895 putative NAD(P) binding site [chemical binding]; other site 439235008896 active site 439235008897 putative substrate binding site [chemical binding]; other site 439235008898 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 439235008899 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235008900 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235008901 4Fe-4S binding domain; Region: Fer4; pfam00037 439235008902 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 439235008903 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 439235008904 active site 439235008905 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 439235008906 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235008907 acyl-activating enzyme (AAE) consensus motif; other site 439235008908 AMP binding site [chemical binding]; other site 439235008909 active site 439235008910 CoA binding site [chemical binding]; other site 439235008911 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235008912 4Fe-4S binding domain; Region: Fer4_6; pfam12837 439235008913 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 439235008914 Nitroreductase family; Region: Nitroreductase; pfam00881 439235008915 FMN binding site [chemical binding]; other site 439235008916 dimer interface [polypeptide binding]; other site 439235008917 D-cysteine desulfhydrase; Validated; Region: PRK03910 439235008918 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 439235008919 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 439235008920 catalytic residue [active] 439235008921 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 439235008922 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235008923 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235008924 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 439235008925 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235008926 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235008927 active site 439235008928 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 439235008929 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 439235008930 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 439235008931 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 439235008932 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 439235008933 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 439235008934 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 439235008935 carboxyltransferase (CT) interaction site; other site 439235008936 biotinylation site [posttranslational modification]; other site 439235008937 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 439235008938 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 439235008939 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 439235008940 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 439235008941 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 439235008942 active site 439235008943 Transposase [DNA replication, recombination, and repair]; Region: COG5421 439235008944 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 439235008945 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 439235008946 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 439235008947 PAS domain; Region: PAS_9; pfam13426 439235008948 putative active site [active] 439235008949 heme pocket [chemical binding]; other site 439235008950 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439235008951 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439235008952 metal binding site [ion binding]; metal-binding site 439235008953 active site 439235008954 I-site; other site 439235008955 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 439235008956 DNA binding residues [nucleotide binding] 439235008957 Response regulator receiver domain; Region: Response_reg; pfam00072 439235008958 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 439235008959 active site 439235008960 phosphorylation site [posttranslational modification] 439235008961 intermolecular recognition site; other site 439235008962 dimerization interface [polypeptide binding]; other site 439235008963 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; cl00246 439235008964 FAD binding site [chemical binding]; other site 439235008965 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 439235008966 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 439235008967 catalytic loop [active] 439235008968 iron binding site [ion binding]; other site 439235008969 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 439235008970 4Fe-4S binding domain; Region: Fer4; pfam00037 439235008971 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 439235008972 molybdopterin cofactor binding site; other site 439235008973 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 439235008974 molybdopterin cofactor binding site; other site 439235008975 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 439235008976 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 439235008977 putative dimer interface [polypeptide binding]; other site 439235008978 [2Fe-2S] cluster binding site [ion binding]; other site 439235008979 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 439235008980 dimer interface [polypeptide binding]; other site 439235008981 [2Fe-2S] cluster binding site [ion binding]; other site 439235008982 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 439235008983 SLBB domain; Region: SLBB; pfam10531 439235008984 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 439235008985 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 439235008986 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439235008987 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 439235008988 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 439235008989 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 439235008990 FAD binding site [chemical binding]; other site 439235008991 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 439235008992 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 439235008993 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 439235008994 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235008995 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 439235008996 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 439235008997 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 439235008998 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 439235008999 active site 439235009000 phosphorylation site [posttranslational modification] 439235009001 intermolecular recognition site; other site 439235009002 dimerization interface [polypeptide binding]; other site 439235009003 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 439235009004 DNA binding residues [nucleotide binding] 439235009005 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 439235009006 PAS domain; Region: PAS; smart00091 439235009007 PAS domain; Region: PAS_9; pfam13426 439235009008 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 439235009009 PAS fold; Region: PAS_4; pfam08448 439235009010 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 439235009011 putative active site [active] 439235009012 heme pocket [chemical binding]; other site 439235009013 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 439235009014 Histidine kinase; Region: HisKA_3; pfam07730 439235009015 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 439235009016 ATP binding site [chemical binding]; other site 439235009017 Mg2+ binding site [ion binding]; other site 439235009018 G-X-G motif; other site 439235009019 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 439235009020 DctM-like transporters; Region: DctM; pfam06808 439235009021 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 439235009022 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 439235009023 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 439235009024 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 439235009025 catalytic residue [active] 439235009026 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 439235009027 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 439235009028 B12 binding domain; Region: B12-binding; pfam02310 439235009029 B12 binding site [chemical binding]; other site 439235009030 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 439235009031 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 439235009032 FeS/SAM binding site; other site 439235009033 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 439235009034 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 439235009035 intersubunit interface [polypeptide binding]; other site 439235009036 active site 439235009037 Zn2+ binding site [ion binding]; other site 439235009038 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 439235009039 intersubunit interface [polypeptide binding]; other site 439235009040 active site 439235009041 zinc binding site [ion binding]; other site 439235009042 Na+ binding site [ion binding]; other site 439235009043 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 439235009044 Phosphotransferase enzyme family; Region: APH; pfam01636 439235009045 active site 439235009046 substrate binding site [chemical binding]; other site 439235009047 ATP binding site [chemical binding]; other site 439235009048 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 439235009049 L-iditol 2-dehydrogenase; Region: iditol_2_DH_like; cd08235 439235009050 putative NAD(P) binding site [chemical binding]; other site 439235009051 catalytic Zn binding site [ion binding]; other site 439235009052 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 439235009053 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439235009054 DNA-binding site [nucleotide binding]; DNA binding site 439235009055 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 439235009056 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 439235009057 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 439235009058 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 439235009059 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 439235009060 FeS/SAM binding site; other site 439235009061 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 439235009062 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 439235009063 substrate binding site [chemical binding]; other site 439235009064 glutamase interaction surface [polypeptide binding]; other site 439235009065 Fic/DOC family; Region: Fic; pfam02661 439235009066 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 439235009067 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 439235009068 PHP domain; Region: PHP; pfam02811 439235009069 active site 439235009070 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 439235009071 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 439235009072 putative active site [active] 439235009073 putative catalytic site [active] 439235009074 putative Mg binding site IVb [ion binding]; other site 439235009075 putative phosphate binding site [ion binding]; other site 439235009076 putative DNA binding site [nucleotide binding]; other site 439235009077 putative Mg binding site IVa [ion binding]; other site 439235009078 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 439235009079 putative homodimer interface [polypeptide binding]; other site 439235009080 putative homotetramer interface [polypeptide binding]; other site 439235009081 putative allosteric switch controlling residues; other site 439235009082 putative metal binding site [ion binding]; other site 439235009083 putative homodimer-homodimer interface [polypeptide binding]; other site 439235009084 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 439235009085 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 439235009086 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 439235009087 LabA_like proteins; Region: LabA_like; cd06167 439235009088 putative metal binding site [ion binding]; other site 439235009089 Lamin Tail Domain; Region: LTD; pfam00932 439235009090 Thrombospondin type 1 repeats; Region: TSP1; smart00209 439235009091 Thrombospondin type 1 repeats; Region: TSP1; smart00209 439235009092 Thrombospondin type 1 repeats; Region: TSP1; smart00209 439235009093 Thrombospondin type 1 repeats; Region: TSP1; smart00209 439235009094 Thrombospondin type 1 repeats; Region: TSP1; smart00209 439235009095 Thrombospondin type 1 repeats; Region: TSP1; smart00209 439235009096 Thrombospondin type 1 repeats; Region: TSP1; smart00209 439235009097 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 439235009098 CoA binding domain; Region: CoA_binding_2; pfam13380 439235009099 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 439235009100 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 439235009101 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 439235009102 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439235009103 NAD(P) binding site [chemical binding]; other site 439235009104 active site 439235009105 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 439235009106 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 439235009107 FeS/SAM binding site; other site 439235009108 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 439235009109 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 439235009110 Putative Fe-S cluster; Region: FeS; cl17515 439235009111 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235009112 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 439235009113 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 439235009114 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439235009115 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 439235009116 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 439235009117 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 439235009118 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 439235009119 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 439235009120 [4Fe-4S] binding site [ion binding]; other site 439235009121 molybdopterin cofactor binding site; other site 439235009122 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 439235009123 molybdopterin cofactor binding site; other site 439235009124 flavodoxin; Provisional; Region: PRK06242 439235009125 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 439235009126 4Fe-4S binding domain; Region: Fer4; pfam00037 439235009127 glycerol kinase; Provisional; Region: glpK; PRK00047 439235009128 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 439235009129 N- and C-terminal domain interface [polypeptide binding]; other site 439235009130 active site 439235009131 MgATP binding site [chemical binding]; other site 439235009132 catalytic site [active] 439235009133 metal binding site [ion binding]; metal-binding site 439235009134 glycerol binding site [chemical binding]; other site 439235009135 homotetramer interface [polypeptide binding]; other site 439235009136 homodimer interface [polypeptide binding]; other site 439235009137 FBP binding site [chemical binding]; other site 439235009138 protein IIAGlc interface [polypeptide binding]; other site 439235009139 Peptidase family M48; Region: Peptidase_M48; cl12018 439235009140 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 439235009141 TPR motif; other site 439235009142 TPR repeat; Region: TPR_11; pfam13414 439235009143 binding surface 439235009144 TPR repeat; Region: TPR_11; pfam13414 439235009145 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 439235009146 binding surface 439235009147 TPR motif; other site 439235009148 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235009149 4Fe-4S binding domain; Region: Fer4; pfam00037 439235009150 Protein of unknown function DUF111; Region: DUF111; pfam01969 439235009151 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 439235009152 peptidase T-like protein; Region: PepT-like; TIGR01883 439235009153 metal binding site [ion binding]; metal-binding site 439235009154 putative dimer interface [polypeptide binding]; other site 439235009155 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 439235009156 active site 439235009157 catalytic residues [active] 439235009158 DNA binding site [nucleotide binding] 439235009159 Int/Topo IB signature motif; other site 439235009160 ParB-like nuclease domain; Region: ParBc; cl02129 439235009161 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 439235009162 Radical SAM superfamily; Region: Radical_SAM; pfam04055 439235009163 ribbon-helix-helix domain containing protein; Region: PHA00617 439235009164 Transposase [DNA replication, recombination, and repair]; Region: COG5421 439235009165 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 439235009166 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 439235009167 non-specific DNA binding site [nucleotide binding]; other site 439235009168 salt bridge; other site 439235009169 sequence-specific DNA binding site [nucleotide binding]; other site 439235009170 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 439235009171 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439235009172 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 439235009173 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439235009174 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 439235009175 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 439235009176 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 439235009177 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 439235009178 non-specific DNA binding site [nucleotide binding]; other site 439235009179 salt bridge; other site 439235009180 sequence-specific DNA binding site [nucleotide binding]; other site 439235009181 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 439235009182 HEAT repeats; Region: HEAT_2; pfam13646 439235009183 SEC-C motif; Region: SEC-C; pfam02810 439235009184 Uncharacterized conserved protein [Function unknown]; Region: COG1262 439235009185 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 439235009186 Uncharacterized conserved protein [Function unknown]; Region: COG1262 439235009187 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 439235009188 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235009189 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235009190 WHG domain; Region: WHG; pfam13305 439235009191 PilZ domain; Region: PilZ; pfam07238 439235009192 NAD synthetase; Provisional; Region: PRK13981 439235009193 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 439235009194 multimer interface [polypeptide binding]; other site 439235009195 active site 439235009196 catalytic triad [active] 439235009197 protein interface 1 [polypeptide binding]; other site 439235009198 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 439235009199 homodimer interface [polypeptide binding]; other site 439235009200 NAD binding pocket [chemical binding]; other site 439235009201 ATP binding pocket [chemical binding]; other site 439235009202 Mg binding site [ion binding]; other site 439235009203 active-site loop [active] 439235009204 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 439235009205 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 439235009206 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 439235009207 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 439235009208 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 439235009209 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235009210 putative active site [active] 439235009211 heme pocket [chemical binding]; other site 439235009212 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 439235009213 putative active site [active] 439235009214 heme pocket [chemical binding]; other site 439235009215 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 439235009216 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 439235009217 Walker A motif; other site 439235009218 ATP binding site [chemical binding]; other site 439235009219 Walker B motif; other site 439235009220 arginine finger; other site 439235009221 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235009222 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 439235009223 putative acyltransferase; Provisional; Region: PRK05790 439235009224 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 439235009225 dimer interface [polypeptide binding]; other site 439235009226 active site 439235009227 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 439235009228 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 439235009229 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 439235009230 enoyl-CoA hydratase; Provisional; Region: PRK05862 439235009231 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 439235009232 substrate binding site [chemical binding]; other site 439235009233 oxyanion hole (OAH) forming residues; other site 439235009234 trimer interface [polypeptide binding]; other site 439235009235 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 439235009236 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 439235009237 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235009238 active site 439235009239 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 439235009240 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 439235009241 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 439235009242 active site 439235009243 nucleophile elbow; other site 439235009244 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 439235009245 active site 439235009246 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 439235009247 active site 2 [active] 439235009248 active site 1 [active] 439235009249 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 439235009250 A nuclease of the HNH/ENDO VII superfamily with conserved LHH; Region: LHH; pfam14411 439235009251 MOSC domain; Region: MOSC; pfam03473 439235009252 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 439235009253 non-specific DNA binding site [nucleotide binding]; other site 439235009254 salt bridge; other site 439235009255 sequence-specific DNA binding site [nucleotide binding]; other site 439235009256 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 439235009257 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 439235009258 trimerization site [polypeptide binding]; other site 439235009259 active site 439235009260 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 439235009261 NifU-like domain; Region: NifU; pfam01106 439235009262 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 439235009263 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 439235009264 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 439235009265 catalytic residue [active] 439235009266 serine O-acetyltransferase; Region: cysE; TIGR01172 439235009267 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 439235009268 trimer interface [polypeptide binding]; other site 439235009269 active site 439235009270 substrate binding site [chemical binding]; other site 439235009271 CoA binding site [chemical binding]; other site 439235009272 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 439235009273 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 439235009274 dimer interface [polypeptide binding]; other site 439235009275 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235009276 catalytic residue [active] 439235009277 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 439235009278 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 439235009279 putative active site [active] 439235009280 putative metal binding site [ion binding]; other site 439235009281 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 439235009282 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 439235009283 Walker A motif; other site 439235009284 ATP binding site [chemical binding]; other site 439235009285 Walker B motif; other site 439235009286 arginine finger; other site 439235009287 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235009288 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235009289 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235009290 active site 439235009291 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 439235009292 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235009293 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235009294 acyl-activating enzyme (AAE) consensus motif; other site 439235009295 AMP binding site [chemical binding]; other site 439235009296 active site 439235009297 CoA binding site [chemical binding]; other site 439235009298 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 439235009299 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 439235009300 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 439235009301 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 439235009302 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 439235009303 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 439235009304 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 439235009305 carboxyltransferase (CT) interaction site; other site 439235009306 biotinylation site [posttranslational modification]; other site 439235009307 (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. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 439235009308 active site 439235009309 catalytic site [active] 439235009310 TIGR03084 family protein; Region: TIGR03084 439235009311 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 439235009312 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 439235009313 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235009314 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235009315 active site 439235009316 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235009317 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235009318 active site 439235009319 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235009320 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235009321 active site 439235009322 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439235009323 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 439235009324 ligand binding site [chemical binding]; other site 439235009325 flexible hinge region; other site 439235009326 Protein of unknown function (DUF2185); Region: DUF2185; cl02019 439235009327 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 439235009328 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 439235009329 active site 439235009330 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 439235009331 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 439235009332 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 439235009333 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 439235009334 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 439235009335 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 439235009336 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235009337 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235009338 LexA repressor; Validated; Region: PRK00215 439235009339 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 439235009340 putative DNA binding site [nucleotide binding]; other site 439235009341 putative Zn2+ binding site [ion binding]; other site 439235009342 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 439235009343 Catalytic site [active] 439235009344 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 439235009345 generic binding surface II; other site 439235009346 generic binding surface I; other site 439235009347 Protein of unknown function DUF72; Region: DUF72; pfam01904 439235009348 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 439235009349 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 439235009350 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 439235009351 CoA binding domain; Region: CoA_binding_2; pfam13380 439235009352 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 439235009353 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 439235009354 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 439235009355 active site 439235009356 phosphorylation site [posttranslational modification] 439235009357 intermolecular recognition site; other site 439235009358 dimerization interface [polypeptide binding]; other site 439235009359 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 439235009360 SpoVR like protein; Region: SpoVR; pfam04293 439235009361 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 439235009362 hypothetical protein; Provisional; Region: PRK05325 439235009363 PrkA AAA domain; Region: AAA_PrkA; smart00763 439235009364 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 439235009365 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 439235009366 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 439235009367 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439235009368 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439235009369 metal binding site [ion binding]; metal-binding site 439235009370 active site 439235009371 I-site; other site 439235009372 AhpC/TSA family; Region: AhpC-TSA; pfam00578 439235009373 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 439235009374 putative hydrophobic ligand binding site [chemical binding]; other site 439235009375 protein interface [polypeptide binding]; other site 439235009376 gate; other site 439235009377 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 439235009378 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 439235009379 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 439235009380 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 439235009381 23S rRNA interface [nucleotide binding]; other site 439235009382 L3 interface [polypeptide binding]; other site 439235009383 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 439235009384 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 439235009385 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 439235009386 substrate binding site [chemical binding]; other site 439235009387 oxyanion hole (OAH) forming residues; other site 439235009388 trimer interface [polypeptide binding]; other site 439235009389 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 439235009390 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 439235009391 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 439235009392 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 439235009393 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 439235009394 Catalytic domain of Protein Kinases; Region: PKc; cd00180 439235009395 active site 439235009396 ATP binding site [chemical binding]; other site 439235009397 substrate binding site [chemical binding]; other site 439235009398 activation loop (A-loop); other site 439235009399 Double zinc ribbon; Region: DZR; pfam12773 439235009400 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 439235009401 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 439235009402 binding surface 439235009403 TPR motif; other site 439235009404 Double zinc ribbon; Region: DZR; pfam12773 439235009405 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 439235009406 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 439235009407 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 439235009408 active site 439235009409 ATP binding site [chemical binding]; other site 439235009410 substrate binding site [chemical binding]; other site 439235009411 activation loop (A-loop); other site 439235009412 Double zinc ribbon; Region: DZR; pfam12773 439235009413 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 439235009414 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 439235009415 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 439235009416 phosphopeptide binding site; other site 439235009417 EamA-like transporter family; Region: EamA; pfam00892 439235009418 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 439235009419 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 439235009420 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439235009421 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 439235009422 ligand binding site [chemical binding]; other site 439235009423 flexible hinge region; other site 439235009424 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 439235009425 putative switch regulator; other site 439235009426 non-specific DNA interactions [nucleotide binding]; other site 439235009427 DNA binding site [nucleotide binding] 439235009428 sequence specific DNA binding site [nucleotide binding]; other site 439235009429 putative cAMP binding site [chemical binding]; other site 439235009430 Predicted membrane protein [Function unknown]; Region: COG1238 439235009431 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 439235009432 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 439235009433 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 439235009434 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 439235009435 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235009436 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235009437 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 439235009438 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 439235009439 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 439235009440 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 439235009441 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 439235009442 TPP-binding site [chemical binding]; other site 439235009443 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 439235009444 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 439235009445 dimer interface [polypeptide binding]; other site 439235009446 PYR/PP interface [polypeptide binding]; other site 439235009447 TPP binding site [chemical binding]; other site 439235009448 substrate binding site [chemical binding]; other site 439235009449 Ferredoxin [Energy production and conversion]; Region: COG1146 439235009450 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 439235009451 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 439235009452 Ligand Binding Site [chemical binding]; other site 439235009453 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 439235009454 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 439235009455 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 439235009456 DNA-binding site [nucleotide binding]; DNA binding site 439235009457 RNA-binding motif; other site 439235009458 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 439235009459 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 439235009460 dimer interface [polypeptide binding]; other site 439235009461 active site 439235009462 CoA binding pocket [chemical binding]; other site 439235009463 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235009464 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 439235009465 active site 439235009466 phosphorylation site [posttranslational modification] 439235009467 intermolecular recognition site; other site 439235009468 dimerization interface [polypeptide binding]; other site 439235009469 Transcriptional regulators [Transcription]; Region: FadR; COG2186 439235009470 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439235009471 DNA-binding site [nucleotide binding]; DNA binding site 439235009472 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 439235009473 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 439235009474 classical (c) SDRs; Region: SDR_c; cd05233 439235009475 NAD(P) binding site [chemical binding]; other site 439235009476 active site 439235009477 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 439235009478 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 439235009479 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 439235009480 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235009481 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235009482 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 439235009483 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 439235009484 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235009485 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 439235009486 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 439235009487 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 439235009488 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 439235009489 High-affinity nickel-transport protein; Region: NicO; cl00964 439235009490 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 439235009491 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 439235009492 cyclohexanecarboxylate-CoA ligase; Reviewed; Region: PRK13295 439235009493 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 439235009494 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 439235009495 G1 box; other site 439235009496 GTP/Mg2+ binding site [chemical binding]; other site 439235009497 Switch I region; other site 439235009498 G2 box; other site 439235009499 G3 box; other site 439235009500 Switch II region; other site 439235009501 G4 box; other site 439235009502 G5 box; other site 439235009503 Nucleoside recognition; Region: Gate; pfam07670 439235009504 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 439235009505 FeoA domain; Region: FeoA; pfam04023 439235009506 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439235009507 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439235009508 metal binding site [ion binding]; metal-binding site 439235009509 I-site; other site 439235009510 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 439235009511 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 439235009512 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 439235009513 active site 439235009514 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 439235009515 ribonuclease III; Reviewed; Region: rnc; PRK00102 439235009516 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 439235009517 dimerization interface [polypeptide binding]; other site 439235009518 active site 439235009519 metal binding site [ion binding]; metal-binding site 439235009520 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 439235009521 dsRNA binding site [nucleotide binding]; other site 439235009522 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 439235009523 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 439235009524 DNA polymerase I; Provisional; Region: PRK05755 439235009525 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 439235009526 active site 439235009527 metal binding site 1 [ion binding]; metal-binding site 439235009528 putative 5' ssDNA interaction site; other site 439235009529 metal binding site 3; metal-binding site 439235009530 metal binding site 2 [ion binding]; metal-binding site 439235009531 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 439235009532 putative DNA binding site [nucleotide binding]; other site 439235009533 putative metal binding site [ion binding]; other site 439235009534 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 439235009535 active site 439235009536 catalytic site [active] 439235009537 substrate binding site [chemical binding]; other site 439235009538 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 439235009539 active site 439235009540 DNA binding site [nucleotide binding] 439235009541 catalytic site [active] 439235009542 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 439235009543 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 439235009544 TPR repeat; Region: TPR_11; pfam13414 439235009545 TPR motif; other site 439235009546 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235009547 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 439235009548 TPR motif; other site 439235009549 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 439235009550 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 439235009551 TPP-binding site [chemical binding]; other site 439235009552 dimer interface [polypeptide binding]; other site 439235009553 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 439235009554 PYR/PP interface [polypeptide binding]; other site 439235009555 dimer interface [polypeptide binding]; other site 439235009556 TPP binding site [chemical binding]; other site 439235009557 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 439235009558 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235009559 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235009560 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 439235009561 B12 binding site [chemical binding]; other site 439235009562 cobalt ligand [ion binding]; other site 439235009563 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 439235009564 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 439235009565 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 439235009566 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 439235009567 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 439235009568 FeS/SAM binding site; other site 439235009569 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 439235009570 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 439235009571 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 439235009572 dimer interface [polypeptide binding]; other site 439235009573 anticodon binding site; other site 439235009574 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 439235009575 homodimer interface [polypeptide binding]; other site 439235009576 motif 1; other site 439235009577 active site 439235009578 motif 2; other site 439235009579 GAD domain; Region: GAD; pfam02938 439235009580 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 439235009581 motif 3; other site 439235009582 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 439235009583 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 439235009584 dimer interface [polypeptide binding]; other site 439235009585 motif 1; other site 439235009586 active site 439235009587 motif 2; other site 439235009588 motif 3; other site 439235009589 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 439235009590 anticodon binding site; other site 439235009591 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 439235009592 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 439235009593 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 439235009594 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 439235009595 enolase; Provisional; Region: eno; PRK00077 439235009596 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 439235009597 dimer interface [polypeptide binding]; other site 439235009598 metal binding site [ion binding]; metal-binding site 439235009599 substrate binding pocket [chemical binding]; other site 439235009600 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 439235009601 Amidase; Region: Amidase; cl11426 439235009602 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 439235009603 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 439235009604 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 439235009605 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 439235009606 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 439235009607 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 439235009608 non-specific DNA binding site [nucleotide binding]; other site 439235009609 salt bridge; other site 439235009610 sequence-specific DNA binding site [nucleotide binding]; other site 439235009611 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 439235009612 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 439235009613 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 439235009614 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 439235009615 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 439235009616 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 439235009617 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 439235009618 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 439235009619 Cysteine-rich domain; Region: CCG; pfam02754 439235009620 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 439235009621 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 439235009622 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 439235009623 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 439235009624 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439235009625 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 439235009626 FAD binding site [chemical binding]; other site 439235009627 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 439235009628 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 439235009629 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 439235009630 hinge; other site 439235009631 active site 439235009632 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 439235009633 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 439235009634 Competence protein; Region: Competence; pfam03772 439235009635 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 439235009636 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 439235009637 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439235009638 putative substrate translocation pore; other site 439235009639 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 439235009640 CoenzymeA binding site [chemical binding]; other site 439235009641 subunit interaction site [polypeptide binding]; other site 439235009642 PHB binding site; other site 439235009643 Protein of unknown function (DUF330); Region: DUF330; cl01135 439235009644 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 439235009645 mce related protein; Region: MCE; pfam02470 439235009646 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 439235009647 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 439235009648 Walker A/P-loop; other site 439235009649 ATP binding site [chemical binding]; other site 439235009650 Q-loop/lid; other site 439235009651 ABC transporter signature motif; other site 439235009652 Walker B; other site 439235009653 D-loop; other site 439235009654 H-loop/switch region; other site 439235009655 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 439235009656 anti sigma factor interaction site; other site 439235009657 regulatory phosphorylation site [posttranslational modification]; other site 439235009658 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 439235009659 Permease; Region: Permease; pfam02405 439235009660 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 439235009661 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 439235009662 Beta-Casp domain; Region: Beta-Casp; smart01027 439235009663 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 439235009664 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 439235009665 HSP70 interaction site [polypeptide binding]; other site 439235009666 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 439235009667 substrate binding site [polypeptide binding]; other site 439235009668 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 439235009669 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 439235009670 non-specific DNA binding site [nucleotide binding]; other site 439235009671 salt bridge; other site 439235009672 sequence-specific DNA binding site [nucleotide binding]; other site 439235009673 Helix-turn-helix domain; Region: HTH_17; pfam12728 439235009674 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 439235009675 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 439235009676 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 439235009677 active site 439235009678 catalytic residues [active] 439235009679 DNA binding site [nucleotide binding] 439235009680 Int/Topo IB signature motif; other site 439235009681 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 439235009682 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 439235009683 active site 439235009684 Isochorismatase family; Region: Isochorismatase; pfam00857 439235009685 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 439235009686 catalytic triad [active] 439235009687 dimer interface [polypeptide binding]; other site 439235009688 conserved cis-peptide bond; other site 439235009689 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 439235009690 catalytic core [active] 439235009691 Protein of unknown function DUF72; Region: DUF72; pfam01904 439235009692 short chain dehydrogenase; Provisional; Region: PRK07832 439235009693 classical (c) SDRs; Region: SDR_c; cd05233 439235009694 NAD(P) binding site [chemical binding]; other site 439235009695 active site 439235009696 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 439235009697 heme-binding residues [chemical binding]; other site 439235009698 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 439235009699 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 439235009700 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 439235009701 putative active site [active] 439235009702 TPR repeat; Region: TPR_11; pfam13414 439235009703 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 439235009704 FeS/SAM binding site; other site 439235009705 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 439235009706 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 439235009707 putative ribose interaction site [chemical binding]; other site 439235009708 putative ADP binding site [chemical binding]; other site 439235009709 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 439235009710 active site 439235009711 nucleotide binding site [chemical binding]; other site 439235009712 HIGH motif; other site 439235009713 KMSKS motif; other site 439235009714 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 439235009715 Protein involved in mRNA turnover and stability [RNA processing and modification]; Region: SSM4; COG5183 439235009716 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 439235009717 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 439235009718 catalytic residues [active] 439235009719 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 439235009720 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 439235009721 dimerization interface [polypeptide binding]; other site 439235009722 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 439235009723 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 439235009724 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3664 439235009725 PAS fold; Region: PAS_4; pfam08448 439235009726 PAS domain S-box; Region: sensory_box; TIGR00229 439235009727 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 439235009728 putative active site [active] 439235009729 heme pocket [chemical binding]; other site 439235009730 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235009731 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 439235009732 dimer interface [polypeptide binding]; other site 439235009733 phosphorylation site [posttranslational modification] 439235009734 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 439235009735 ATP binding site [chemical binding]; other site 439235009736 Mg2+ binding site [ion binding]; other site 439235009737 G-X-G motif; other site 439235009738 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235009739 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 439235009740 active site 439235009741 phosphorylation site [posttranslational modification] 439235009742 intermolecular recognition site; other site 439235009743 dimerization interface [polypeptide binding]; other site 439235009744 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 439235009745 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 439235009746 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 439235009747 Walker A motif; other site 439235009748 ATP binding site [chemical binding]; other site 439235009749 Walker B motif; other site 439235009750 arginine finger; other site 439235009751 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 439235009752 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 439235009753 Cysteine-rich domain; Region: CCG; pfam02754 439235009754 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 439235009755 FAD binding domain; Region: FAD_binding_4; pfam01565 439235009756 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 439235009757 Cysteine-rich domain; Region: CCG; pfam02754 439235009758 Cysteine-rich domain; Region: CCG; pfam02754 439235009759 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 439235009760 active site 439235009761 phosphorylation site [posttranslational modification] 439235009762 intermolecular recognition site; other site 439235009763 dimerization interface [polypeptide binding]; other site 439235009764 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439235009765 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439235009766 metal binding site [ion binding]; metal-binding site 439235009767 active site 439235009768 I-site; other site 439235009769 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 439235009770 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 439235009771 GDP-binding site [chemical binding]; other site 439235009772 ACT binding site; other site 439235009773 IMP binding site; other site 439235009774 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 439235009775 nucleoside/Zn binding site; other site 439235009776 dimer interface [polypeptide binding]; other site 439235009777 catalytic motif [active] 439235009778 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH5; cd08189 439235009779 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 439235009780 putative active site [active] 439235009781 metal binding site [ion binding]; metal-binding site 439235009782 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 439235009783 CoenzymeA binding site [chemical binding]; other site 439235009784 subunit interaction site [polypeptide binding]; other site 439235009785 PHB binding site; other site 439235009786 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 439235009787 primosomal protein N' Region: priA; TIGR00595 439235009788 ATP binding site [chemical binding]; other site 439235009789 putative Mg++ binding site [ion binding]; other site 439235009790 helicase superfamily c-terminal domain; Region: HELICc; smart00490 439235009791 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 439235009792 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 439235009793 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 439235009794 Part of AAA domain; Region: AAA_19; pfam13245 439235009795 PDZ-like domain; Region: PDZ_1; pfam12812 439235009796 Family description; Region: UvrD_C_2; pfam13538 439235009797 PBP superfamily domain; Region: PBP_like_2; pfam12849 439235009798 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 439235009799 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235009800 putative active site [active] 439235009801 heme pocket [chemical binding]; other site 439235009802 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 439235009803 dimer interface [polypeptide binding]; other site 439235009804 phosphorylation site [posttranslational modification] 439235009805 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 439235009806 ATP binding site [chemical binding]; other site 439235009807 Mg2+ binding site [ion binding]; other site 439235009808 G-X-G motif; other site 439235009809 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 439235009810 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 439235009811 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 439235009812 Part of AAA domain; Region: AAA_19; pfam13245 439235009813 Family description; Region: UvrD_C_2; pfam13538 439235009814 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 439235009815 AAA domain; Region: AAA_30; pfam13604 439235009816 Family description; Region: UvrD_C_2; pfam13538 439235009817 Flagellin N-methylase; Region: FliB; cl00497 439235009818 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 439235009819 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 439235009820 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 439235009821 DNA binding residues [nucleotide binding] 439235009822 dimerization interface [polypeptide binding]; other site 439235009823 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 439235009824 RNA 2'-phosphotransferase, Tpt1 / KptA family; Region: PTS_2-RNA; pfam01885 439235009825 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 439235009826 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 439235009827 inhibitor-cofactor binding pocket; inhibition site 439235009828 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235009829 catalytic residue [active] 439235009830 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 439235009831 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 439235009832 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 439235009833 ATP synthase subunit C; Region: ATP-synt_C; cl00466 439235009834 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 439235009835 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 439235009836 CoA binding domain; Region: CoA_binding; pfam02629 439235009837 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 439235009838 PAS domain; Region: PAS_9; pfam13426 439235009839 putative active site [active] 439235009840 heme pocket [chemical binding]; other site 439235009841 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439235009842 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439235009843 metal binding site [ion binding]; metal-binding site 439235009844 active site 439235009845 I-site; other site 439235009846 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 439235009847 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 439235009848 putative active site [active] 439235009849 Zn binding site [ion binding]; other site 439235009850 LIM is a small protein-protein interaction domain, containing two zinc fingers; Region: LIM; cl02475 439235009851 Zn binding site [ion binding]; other site 439235009852 Helix-turn-helix domain; Region: HTH_17; pfam12728 439235009853 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 439235009854 active site 439235009855 phosphorylation site [posttranslational modification] 439235009856 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 439235009857 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 439235009858 Cl- selectivity filter; other site 439235009859 Cl- binding residues [ion binding]; other site 439235009860 pore gating glutamate residue; other site 439235009861 dimer interface [polypeptide binding]; other site 439235009862 FOG: CBS domain [General function prediction only]; Region: COG0517 439235009863 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 439235009864 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 439235009865 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 439235009866 putative dimer interface [polypeptide binding]; other site 439235009867 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 439235009868 putative dimer interface [polypeptide binding]; other site 439235009869 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 439235009870 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 439235009871 putative acyl-acceptor binding pocket; other site 439235009872 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 439235009873 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 439235009874 catalytic motif [active] 439235009875 Catalytic residue [active] 439235009876 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 439235009877 AAA domain; Region: AAA_30; pfam13604 439235009878 Family description; Region: UvrD_C_2; pfam13538 439235009879 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 439235009880 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 439235009881 active site 439235009882 motif I; other site 439235009883 motif II; other site 439235009884 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 439235009885 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 439235009886 Sporulation related domain; Region: SPOR; pfam05036 439235009887 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 439235009888 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 439235009889 Walker A motif; other site 439235009890 ATP binding site [chemical binding]; other site 439235009891 Walker B motif; other site 439235009892 arginine finger; other site 439235009893 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 439235009894 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 439235009895 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 439235009896 putative dimer interface [polypeptide binding]; other site 439235009897 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 439235009898 Transposase; Region: DEDD_Tnp_IS110; pfam01548 439235009899 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 439235009900 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 439235009901 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 439235009902 nudix motif; other site 439235009903 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 439235009904 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 439235009905 putative substrate translocation pore; other site 439235009906 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 439235009907 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 439235009908 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 439235009909 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 439235009910 Walker A/P-loop; other site 439235009911 ATP binding site [chemical binding]; other site 439235009912 Q-loop/lid; other site 439235009913 ABC transporter signature motif; other site 439235009914 Walker B; other site 439235009915 D-loop; other site 439235009916 H-loop/switch region; other site 439235009917 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 439235009918 IHF dimer interface [polypeptide binding]; other site 439235009919 IHF - DNA interface [nucleotide binding]; other site 439235009920 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 439235009921 Flagellin N-methylase; Region: FliB; pfam03692 439235009922 HAMP domain; Region: HAMP; pfam00672 439235009923 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 439235009924 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 439235009925 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 439235009926 dimer interface [polypeptide binding]; other site 439235009927 phosphorylation site [posttranslational modification] 439235009928 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 439235009929 ATP binding site [chemical binding]; other site 439235009930 Mg2+ binding site [ion binding]; other site 439235009931 G-X-G motif; other site 439235009932 Response regulator receiver domain; Region: Response_reg; pfam00072 439235009933 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 439235009934 active site 439235009935 phosphorylation site [posttranslational modification] 439235009936 intermolecular recognition site; other site 439235009937 dimerization interface [polypeptide binding]; other site 439235009938 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 439235009939 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_family; cd02803 439235009940 active site 439235009941 FMN binding site [chemical binding]; other site 439235009942 substrate binding site [chemical binding]; other site 439235009943 putative catalytic residue [active] 439235009944 Flavodoxin domain; Region: Flavodoxin_5; cl17428 439235009945 4Fe-4S binding domain; Region: Fer4; pfam00037 439235009946 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235009947 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 439235009948 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 439235009949 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 439235009950 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235009951 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235009952 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 439235009953 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 439235009954 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235009955 Uncharacterized conserved protein [Function unknown]; Region: COG5276 439235009956 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235009957 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 439235009958 binding surface 439235009959 TPR motif; other site 439235009960 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235009961 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235009962 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 439235009963 binding surface 439235009964 TPR motif; other site 439235009965 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235009966 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235009967 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235009968 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235009969 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 439235009970 binding surface 439235009971 TPR motif; other site 439235009972 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235009973 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235009974 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 439235009975 binding surface 439235009976 TPR motif; other site 439235009977 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235009978 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235009979 Uncharacterized conserved protein [Function unknown]; Region: COG1751 439235009980 Pyruvate kinase, alpha/beta domain; Region: PK_C; pfam02887 439235009981 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 439235009982 active site 439235009983 DNA polymerase IV; Validated; Region: PRK02406 439235009984 DNA binding site [nucleotide binding] 439235009985 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 439235009986 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 439235009987 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 439235009988 S-adenosylmethionine binding site [chemical binding]; other site 439235009989 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 439235009990 FMN binding site [chemical binding]; other site 439235009991 dimer interface [polypeptide binding]; other site 439235009992 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 439235009993 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 439235009994 active site 439235009995 phosphorylation site [posttranslational modification] 439235009996 intermolecular recognition site; other site 439235009997 dimerization interface [polypeptide binding]; other site 439235009998 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235009999 Zn2+ binding site [ion binding]; other site 439235010000 Mg2+ binding site [ion binding]; other site 439235010001 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 439235010002 dimer interface [polypeptide binding]; other site 439235010003 phosphorylation site [posttranslational modification] 439235010004 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 439235010005 ATP binding site [chemical binding]; other site 439235010006 Mg2+ binding site [ion binding]; other site 439235010007 G-X-G motif; other site 439235010008 Response regulator receiver domain; Region: Response_reg; pfam00072 439235010009 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 439235010010 active site 439235010011 phosphorylation site [posttranslational modification] 439235010012 intermolecular recognition site; other site 439235010013 dimerization interface [polypeptide binding]; other site 439235010014 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 439235010015 putative hydrophobic ligand binding site [chemical binding]; other site 439235010016 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 439235010017 protein binding site [polypeptide binding]; other site 439235010018 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 439235010019 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 439235010020 TPR motif; other site 439235010021 binding surface 439235010022 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 439235010023 TPR motif; other site 439235010024 binding surface 439235010025 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 439235010026 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 439235010027 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 439235010028 Walker A/P-loop; other site 439235010029 ATP binding site [chemical binding]; other site 439235010030 Q-loop/lid; other site 439235010031 ABC transporter signature motif; other site 439235010032 Walker B; other site 439235010033 D-loop; other site 439235010034 H-loop/switch region; other site 439235010035 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 439235010036 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 439235010037 Walker A/P-loop; other site 439235010038 ATP binding site [chemical binding]; other site 439235010039 Q-loop/lid; other site 439235010040 ABC transporter signature motif; other site 439235010041 Walker B; other site 439235010042 D-loop; other site 439235010043 H-loop/switch region; other site 439235010044 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 439235010045 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 439235010046 TM-ABC transporter signature motif; other site 439235010047 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 439235010048 TM-ABC transporter signature motif; other site 439235010049 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 439235010050 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 439235010051 putative ligand binding site [chemical binding]; other site 439235010052 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 439235010053 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 439235010054 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 439235010055 B12 binding site [chemical binding]; other site 439235010056 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 439235010057 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 439235010058 ATP binding site [chemical binding]; other site 439235010059 Mg2+ binding site [ion binding]; other site 439235010060 G-X-G motif; other site 439235010061 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 439235010062 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 439235010063 active site 439235010064 NTP binding site [chemical binding]; other site 439235010065 metal binding triad [ion binding]; metal-binding site 439235010066 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 439235010067 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235010068 Zn2+ binding site [ion binding]; other site 439235010069 Mg2+ binding site [ion binding]; other site 439235010070 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 439235010071 catalytic residues [active] 439235010072 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 439235010073 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 439235010074 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 439235010075 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 439235010076 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 439235010077 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 439235010078 motif II; other site 439235010079 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 439235010080 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 439235010081 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 439235010082 glycogen synthase; Provisional; Region: glgA; PRK00654 439235010083 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 439235010084 ADP-binding pocket [chemical binding]; other site 439235010085 homodimer interface [polypeptide binding]; other site 439235010086 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 439235010087 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 439235010088 active site 439235010089 Response regulator receiver domain; Region: Response_reg; pfam00072 439235010090 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 439235010091 active site 439235010092 phosphorylation site [posttranslational modification] 439235010093 intermolecular recognition site; other site 439235010094 dimerization interface [polypeptide binding]; other site 439235010095 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 439235010096 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 439235010097 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235010098 Zn2+ binding site [ion binding]; other site 439235010099 Mg2+ binding site [ion binding]; other site 439235010100 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 439235010101 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 439235010102 Sulfate transporter family; Region: Sulfate_transp; pfam00916 439235010103 Sulfate transporter family; Region: Sulfate_transp; pfam00916 439235010104 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 439235010105 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 439235010106 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 439235010107 Response regulator receiver domain; Region: Response_reg; pfam00072 439235010108 active site 439235010109 phosphorylation site [posttranslational modification] 439235010110 intermolecular recognition site; other site 439235010111 dimerization interface [polypeptide binding]; other site 439235010112 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 439235010113 Response regulator receiver domain; Region: Response_reg; pfam00072 439235010114 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 439235010115 active site 439235010116 phosphorylation site [posttranslational modification] 439235010117 intermolecular recognition site; other site 439235010118 dimerization interface [polypeptide binding]; other site 439235010119 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 439235010120 dimer interface [polypeptide binding]; other site 439235010121 phosphorylation site [posttranslational modification] 439235010122 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 439235010123 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 439235010124 ATP binding site [chemical binding]; other site 439235010125 Mg2+ binding site [ion binding]; other site 439235010126 G-X-G motif; other site 439235010127 Response regulator receiver domain; Region: Response_reg; pfam00072 439235010128 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 439235010129 active site 439235010130 phosphorylation site [posttranslational modification] 439235010131 intermolecular recognition site; other site 439235010132 dimerization interface [polypeptide binding]; other site 439235010133 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 439235010134 dimer interface [polypeptide binding]; other site 439235010135 phosphorylation site [posttranslational modification] 439235010136 Response regulator receiver domain; Region: Response_reg; pfam00072 439235010137 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 439235010138 active site 439235010139 phosphorylation site [posttranslational modification] 439235010140 intermolecular recognition site; other site 439235010141 dimerization interface [polypeptide binding]; other site 439235010142 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 439235010143 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 439235010144 N-terminal plug; other site 439235010145 ligand-binding site [chemical binding]; other site 439235010146 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 439235010147 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 439235010148 PAS domain; Region: PAS_9; pfam13426 439235010149 putative active site [active] 439235010150 heme pocket [chemical binding]; other site 439235010151 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235010152 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 439235010153 ATP binding site [chemical binding]; other site 439235010154 Mg2+ binding site [ion binding]; other site 439235010155 G-X-G motif; other site 439235010156 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 439235010157 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235010158 putative active site [active] 439235010159 heme pocket [chemical binding]; other site 439235010160 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 439235010161 putative active site [active] 439235010162 heme pocket [chemical binding]; other site 439235010163 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235010164 PAS domain; Region: PAS; smart00091 439235010165 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 439235010166 dimer interface [polypeptide binding]; other site 439235010167 phosphorylation site [posttranslational modification] 439235010168 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 439235010169 ATP binding site [chemical binding]; other site 439235010170 Mg2+ binding site [ion binding]; other site 439235010171 G-X-G motif; other site 439235010172 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 439235010173 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 439235010174 P loop; other site 439235010175 Nucleotide binding site [chemical binding]; other site 439235010176 DTAP/Switch II; other site 439235010177 Switch I; other site 439235010178 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 439235010179 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 439235010180 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 439235010181 DTAP/Switch II; other site 439235010182 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 439235010183 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 439235010184 motif 1; other site 439235010185 active site 439235010186 motif 2; other site 439235010187 motif 3; other site 439235010188 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 439235010189 DHHA1 domain; Region: DHHA1; pfam02272 439235010190 recombinase A; Provisional; Region: recA; PRK09354 439235010191 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 439235010192 hexamer interface [polypeptide binding]; other site 439235010193 Walker A motif; other site 439235010194 ATP binding site [chemical binding]; other site 439235010195 Walker B motif; other site 439235010196 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 439235010197 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 439235010198 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 439235010199 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 439235010200 tetramer interfaces [polypeptide binding]; other site 439235010201 binuclear metal-binding site [ion binding]; other site 439235010202 OmpW family; Region: OmpW; cl17427 439235010203 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 439235010204 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 439235010205 active site 439235010206 phosphorylation site [posttranslational modification] 439235010207 intermolecular recognition site; other site 439235010208 dimerization interface [polypeptide binding]; other site 439235010209 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 439235010210 Walker A motif; other site 439235010211 ATP binding site [chemical binding]; other site 439235010212 Walker B motif; other site 439235010213 arginine finger; other site 439235010214 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235010215 Response regulator receiver domain; Region: Response_reg; pfam00072 439235010216 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 439235010217 active site 439235010218 phosphorylation site [posttranslational modification] 439235010219 intermolecular recognition site; other site 439235010220 dimerization interface [polypeptide binding]; other site 439235010221 PAS domain; Region: PAS; smart00091 439235010222 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235010223 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 439235010224 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 439235010225 putative active site [active] 439235010226 heme pocket [chemical binding]; other site 439235010227 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 439235010228 dimer interface [polypeptide binding]; other site 439235010229 phosphorylation site [posttranslational modification] 439235010230 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 439235010231 ATP binding site [chemical binding]; other site 439235010232 Mg2+ binding site [ion binding]; other site 439235010233 G-X-G motif; other site 439235010234 Transglycosylase SLT domain; Region: SLT_2; pfam13406 439235010235 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 439235010236 N-acetyl-D-glucosamine binding site [chemical binding]; other site 439235010237 histidinol-phosphatase; Provisional; Region: PRK07328 439235010238 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 439235010239 active site 439235010240 dimer interface [polypeptide binding]; other site 439235010241 DNA repair protein RadA; Provisional; Region: PRK11823 439235010242 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 439235010243 Walker A motif/ATP binding site; other site 439235010244 ATP binding site [chemical binding]; other site 439235010245 Walker B motif; other site 439235010246 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 439235010247 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 439235010248 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 439235010249 S-adenosylmethionine binding site [chemical binding]; other site 439235010250 hypothetical protein; Validated; Region: PRK00110 439235010251 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 439235010252 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439235010253 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439235010254 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 439235010255 zinc-ribbon domain; Region: zinc_ribbon_4; pfam13717 439235010256 HDOD domain; Region: HDOD; pfam08668 439235010257 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 439235010258 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 439235010259 Catalytic domain of Protein Kinases; Region: PKc; cd00180 439235010260 active site 439235010261 ATP binding site [chemical binding]; other site 439235010262 substrate binding site [chemical binding]; other site 439235010263 activation loop (A-loop); other site 439235010264 Protein kinase domain; Region: Pkinase; pfam00069 439235010265 Catalytic domain of Protein Kinases; Region: PKc; cd00180 439235010266 active site 439235010267 ATP binding site [chemical binding]; other site 439235010268 substrate binding site [chemical binding]; other site 439235010269 activation loop (A-loop); other site 439235010270 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 439235010271 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 439235010272 TAP-like protein; Region: Abhydrolase_4; pfam08386 439235010273 short chain dehydrogenase; Provisional; Region: PRK07478 439235010274 classical (c) SDRs; Region: SDR_c; cd05233 439235010275 NAD(P) binding site [chemical binding]; other site 439235010276 active site 439235010277 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 439235010278 Transcriptional regulators [Transcription]; Region: MarR; COG1846 439235010279 MarR family; Region: MarR_2; pfam12802 439235010280 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 439235010281 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 439235010282 putative NADP binding site [chemical binding]; other site 439235010283 putative substrate binding site [chemical binding]; other site 439235010284 active site 439235010285 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 439235010286 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 439235010287 putative FMN binding site [chemical binding]; other site 439235010288 Predicted transcriptional regulators [Transcription]; Region: COG1733 439235010289 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 439235010290 dimerization interface [polypeptide binding]; other site 439235010291 putative DNA binding site [nucleotide binding]; other site 439235010292 putative Zn2+ binding site [ion binding]; other site 439235010293 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 439235010294 tetramer (dimer of dimers) interface [polypeptide binding]; other site 439235010295 active site 439235010296 dimer interface [polypeptide binding]; other site 439235010297 response regulator PleD; Reviewed; Region: pleD; PRK09581 439235010298 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 439235010299 active site 439235010300 phosphorylation site [posttranslational modification] 439235010301 intermolecular recognition site; other site 439235010302 dimerization interface [polypeptide binding]; other site 439235010303 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 439235010304 dimer interface [polypeptide binding]; other site 439235010305 phosphorylation site [posttranslational modification] 439235010306 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 439235010307 active site 439235010308 phosphorylation site [posttranslational modification] 439235010309 intermolecular recognition site; other site 439235010310 dimerization interface [polypeptide binding]; other site 439235010311 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439235010312 metal binding site [ion binding]; metal-binding site 439235010313 active site 439235010314 I-site; other site 439235010315 Domain of unknown function DUF20; Region: UPF0118; pfam01594 439235010316 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 439235010317 4Fe-4S binding domain; Region: Fer4_5; pfam12801 439235010318 4Fe-4S binding domain; Region: Fer4_5; pfam12801 439235010319 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 439235010320 ferredoxin-type protein; Provisional; Region: PRK10194 439235010321 4Fe-4S binding domain; Region: Fer4; pfam00037 439235010322 Domain of unknown function (DUF362); Region: DUF362; pfam04015 439235010323 Uncharacterized conserved protein [Function unknown]; Region: COG2006 439235010324 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 439235010325 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 439235010326 Ligand binding site; other site 439235010327 Putative Catalytic site; other site 439235010328 DXD motif; other site 439235010329 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 439235010330 active site 439235010331 metal binding site [ion binding]; metal-binding site 439235010332 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 439235010333 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 439235010334 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 439235010335 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 439235010336 dimer interface [polypeptide binding]; other site 439235010337 PYR/PP interface [polypeptide binding]; other site 439235010338 TPP binding site [chemical binding]; other site 439235010339 substrate binding site [chemical binding]; other site 439235010340 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 439235010341 TPP-binding site; other site 439235010342 coenzyme F420-reducing hydrogenase subunit beta; Validated; Region: PRK09325 439235010343 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 439235010344 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 439235010345 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 439235010346 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 439235010347 Cysteine-rich domain; Region: CCG; pfam02754 439235010348 Cysteine-rich domain; Region: CCG; pfam02754 439235010349 FAD binding domain; Region: FAD_binding_4; pfam01565 439235010350 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 439235010351 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 439235010352 Transcriptional regulator [Transcription]; Region: IclR; COG1414 439235010353 Bacterial transcriptional regulator; Region: IclR; pfam01614 439235010354 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 439235010355 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 439235010356 FeS/SAM binding site; other site 439235010357 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 439235010358 SEC-C motif; Region: SEC-C; pfam02810 439235010359 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 439235010360 Sulfatase; Region: Sulfatase; cl17466 439235010361 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 439235010362 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 439235010363 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439235010364 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 439235010365 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439235010366 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 439235010367 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 439235010368 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 439235010369 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 439235010370 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439235010371 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 439235010372 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 439235010373 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 439235010374 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 439235010375 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439235010376 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 439235010377 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439235010378 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK07824 439235010379 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235010380 acyl-activating enzyme (AAE) consensus motif; other site 439235010381 AMP binding site [chemical binding]; other site 439235010382 active site 439235010383 CoA binding site [chemical binding]; other site 439235010384 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 439235010385 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 439235010386 Probable Catalytic site; other site 439235010387 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 439235010388 mercuric reductase; Validated; Region: PRK06370 439235010389 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 439235010390 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 439235010391 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 439235010392 Uncharacterized conserved protein [Function unknown]; Region: COG0398 439235010393 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 439235010394 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 439235010395 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 439235010396 metal-binding site [ion binding] 439235010397 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 439235010398 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 439235010399 metal-binding site [ion binding] 439235010400 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 439235010401 Soluble P-type ATPase [General function prediction only]; Region: COG4087 439235010402 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 439235010403 metal-binding site [ion binding] 439235010404 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 439235010405 diiron binding motif [ion binding]; other site 439235010406 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 439235010407 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 439235010408 putative active site [active] 439235010409 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 439235010410 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 439235010411 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 439235010412 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 439235010413 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 439235010414 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 439235010415 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 439235010416 dimer interface [polypeptide binding]; other site 439235010417 ADP-ribose binding site [chemical binding]; other site 439235010418 active site 439235010419 nudix motif; other site 439235010420 metal binding site [ion binding]; metal-binding site 439235010421 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 439235010422 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 439235010423 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 439235010424 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 439235010425 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 439235010426 active site 439235010427 Zn binding site [ion binding]; other site 439235010428 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 439235010429 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 439235010430 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 439235010431 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 439235010432 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 439235010433 FeS/SAM binding site; other site 439235010434 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 439235010435 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 439235010436 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 439235010437 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 439235010438 active site 439235010439 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 439235010440 active site 439235010441 zinc transporter ZupT; Provisional; Region: PRK04201 439235010442 ZIP Zinc transporter; Region: Zip; pfam02535 439235010443 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 439235010444 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 439235010445 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 439235010446 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 439235010447 catalytic loop [active] 439235010448 iron binding site [ion binding]; other site 439235010449 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 439235010450 pyruvate carboxylase subunit B; Validated; Region: PRK09282 439235010451 active site 439235010452 catalytic residues [active] 439235010453 metal binding site [ion binding]; metal-binding site 439235010454 homodimer binding site [polypeptide binding]; other site 439235010455 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 439235010456 carboxyltransferase (CT) interaction site; other site 439235010457 biotinylation site [posttranslational modification]; other site 439235010458 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 439235010459 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 439235010460 ATP-grasp domain; Region: ATP-grasp_4; cl17255 439235010461 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 439235010462 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 439235010463 SNF2 Helicase protein; Region: DUF3670; pfam12419 439235010464 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 439235010465 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 439235010466 ATP binding site [chemical binding]; other site 439235010467 putative Mg++ binding site [ion binding]; other site 439235010468 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 439235010469 nucleotide binding region [chemical binding]; other site 439235010470 ATP-binding site [chemical binding]; other site 439235010471 Uncharacterized conserved protein [Function unknown]; Region: COG4279 439235010472 SWIM zinc finger; Region: SWIM; pfam04434 439235010473 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 439235010474 non-specific DNA binding site [nucleotide binding]; other site 439235010475 salt bridge; other site 439235010476 sequence-specific DNA binding site [nucleotide binding]; other site 439235010477 MarR family; Region: MarR_2; pfam12802 439235010478 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 439235010479 CoA binding domain; Region: CoA_binding_2; pfam13380 439235010480 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 439235010481 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 439235010482 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 439235010483 Nitrogen regulatory protein P-II; Region: P-II; smart00938 439235010484 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 439235010485 Ion channel; Region: Ion_trans_2; pfam07885 439235010486 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 439235010487 TrkA-N domain; Region: TrkA_N; pfam02254 439235010488 TrkA-C domain; Region: TrkA_C; pfam02080 439235010489 hypothetical protein; Validated; Region: PRK00228 439235010490 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 439235010491 Omptin family; Region: Omptin; cl01886 439235010492 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235010493 4Fe-4S binding domain; Region: Fer4; pfam00037 439235010494 Protein of unknown function (DUF1847); Region: DUF1847; pfam08901 439235010495 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 439235010496 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235010497 4Fe-4S binding domain; Region: Fer4; pfam00037 439235010498 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235010499 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235010500 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235010501 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 439235010502 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 439235010503 FMN binding site [chemical binding]; other site 439235010504 substrate binding site [chemical binding]; other site 439235010505 putative catalytic residue [active] 439235010506 Uncharacterized protein containing a NRPS condensation (elongation) domain [General function prediction only]; Region: COG4908 439235010507 Flavin Reductases; Region: FlaRed; cl00801 439235010508 classical (c) SDRs; Region: SDR_c; cd05233 439235010509 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 439235010510 NAD(P) binding site [chemical binding]; other site 439235010511 active site 439235010512 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 439235010513 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 439235010514 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235010515 AAA domain; Region: AAA_23; pfam13476 439235010516 AAA domain; Region: AAA_21; pfam13304 439235010517 Walker A/P-loop; other site 439235010518 ATP binding site [chemical binding]; other site 439235010519 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235010520 ABC transporter signature motif; other site 439235010521 Walker B; other site 439235010522 D-loop; other site 439235010523 H-loop/switch region; other site 439235010524 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 439235010525 CoenzymeA binding site [chemical binding]; other site 439235010526 subunit interaction site [polypeptide binding]; other site 439235010527 PHB binding site; other site 439235010528 Sporulation and spore germination; Region: Germane; pfam10646 439235010529 elongation factor G; Reviewed; Region: PRK00007 439235010530 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 439235010531 G1 box; other site 439235010532 putative GEF interaction site [polypeptide binding]; other site 439235010533 GTP/Mg2+ binding site [chemical binding]; other site 439235010534 Switch I region; other site 439235010535 G2 box; other site 439235010536 G3 box; other site 439235010537 Switch II region; other site 439235010538 G4 box; other site 439235010539 G5 box; other site 439235010540 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 439235010541 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cd01680 439235010542 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 439235010543 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 439235010544 4Fe-4S binding domain; Region: Fer4; pfam00037 439235010545 Ferredoxin [Energy production and conversion]; Region: COG1146 439235010546 4Fe-4S binding domain; Region: Fer4; pfam00037 439235010547 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 439235010548 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 439235010549 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 439235010550 active site 439235010551 PHP-associated; Region: PHP_C; pfam13263 439235010552 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 439235010553 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 439235010554 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 439235010555 active site 439235010556 nucleotide binding site [chemical binding]; other site 439235010557 HIGH motif; other site 439235010558 KMSKS motif; other site 439235010559 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 439235010560 Cysteine-rich domain; Region: CCG; pfam02754 439235010561 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 439235010562 4Fe-4S binding domain; Region: Fer4; cl02805 439235010563 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 439235010564 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 439235010565 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 439235010566 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 439235010567 EAL domain; Region: EAL; pfam00563 439235010568 CheD chemotactic sensory transduction; Region: CheD; cl00810 439235010569 HDOD domain; Region: HDOD; pfam08668 439235010570 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235010571 Zn2+ binding site [ion binding]; other site 439235010572 Mg2+ binding site [ion binding]; other site 439235010573 spermidine synthase; Provisional; Region: PRK03612 439235010574 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 439235010575 S-adenosylmethionine binding site [chemical binding]; other site 439235010576 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 439235010577 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; cl00206 439235010578 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 439235010579 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 439235010580 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 439235010581 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235010582 Walker A/P-loop; other site 439235010583 ATP binding site [chemical binding]; other site 439235010584 Q-loop/lid; other site 439235010585 ABC transporter signature motif; other site 439235010586 Walker B; other site 439235010587 D-loop; other site 439235010588 H-loop/switch region; other site 439235010589 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 439235010590 Putative zinc ribbon domain; Region: DUF164; pfam02591 439235010591 Uncharacterized conserved protein [Function unknown]; Region: COG0327 439235010592 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 439235010593 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 439235010594 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 439235010595 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 439235010596 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 439235010597 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 439235010598 DNA binding residues [nucleotide binding] 439235010599 DNA primase; Validated; Region: dnaG; PRK05667 439235010600 CHC2 zinc finger; Region: zf-CHC2; pfam01807 439235010601 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 439235010602 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 439235010603 active site 439235010604 metal binding site [ion binding]; metal-binding site 439235010605 interdomain interaction site; other site 439235010606 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 439235010607 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 439235010608 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 439235010609 catalytic residues [active] 439235010610 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 439235010611 putative active site pocket [active] 439235010612 4-fold oligomerization interface [polypeptide binding]; other site 439235010613 metal binding residues [ion binding]; metal-binding site 439235010614 3-fold/trimer interface [polypeptide binding]; other site 439235010615 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 439235010616 non-specific DNA binding site [nucleotide binding]; other site 439235010617 salt bridge; other site 439235010618 sequence-specific DNA binding site [nucleotide binding]; other site 439235010619 Domain of unknown function (DUF955); Region: DUF955; pfam06114 439235010620 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 439235010621 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235010622 acyl-activating enzyme (AAE) consensus motif; other site 439235010623 AMP binding site [chemical binding]; other site 439235010624 active site 439235010625 CoA binding site [chemical binding]; other site 439235010626 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235010627 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235010628 active site 439235010629 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235010630 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235010631 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 439235010632 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 439235010633 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 439235010634 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 439235010635 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 439235010636 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 439235010637 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 439235010638 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 439235010639 GAF domain; Region: GAF; pfam01590 439235010640 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 439235010641 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 439235010642 putative acyl-acceptor binding pocket; other site 439235010643 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 439235010644 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 439235010645 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08293 439235010646 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 439235010647 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 439235010648 short chain dehydrogenase; Provisional; Region: PRK07035 439235010649 classical (c) SDRs; Region: SDR_c; cd05233 439235010650 NAD(P) binding site [chemical binding]; other site 439235010651 active site 439235010652 Methyltransferase domain; Region: Methyltransf_23; pfam13489 439235010653 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 439235010654 S-adenosylmethionine binding site [chemical binding]; other site 439235010655 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 439235010656 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 439235010657 DNA binding residues [nucleotide binding] 439235010658 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 439235010659 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_10; cd06345 439235010660 putative ligand binding site [chemical binding]; other site 439235010661 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439235010662 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 439235010663 TM-ABC transporter signature motif; other site 439235010664 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 439235010665 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 439235010666 TM-ABC transporter signature motif; other site 439235010667 FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1; Region: FYVE; cl17764 439235010668 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 439235010669 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235010670 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235010671 acyl-activating enzyme (AAE) consensus motif; other site 439235010672 AMP binding site [chemical binding]; other site 439235010673 active site 439235010674 CoA binding site [chemical binding]; other site 439235010675 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 439235010676 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 439235010677 Walker A/P-loop; other site 439235010678 ATP binding site [chemical binding]; other site 439235010679 Q-loop/lid; other site 439235010680 ABC transporter signature motif; other site 439235010681 Walker B; other site 439235010682 D-loop; other site 439235010683 H-loop/switch region; other site 439235010684 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 439235010685 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 439235010686 Walker A/P-loop; other site 439235010687 ATP binding site [chemical binding]; other site 439235010688 Q-loop/lid; other site 439235010689 ABC transporter signature motif; other site 439235010690 Walker B; other site 439235010691 D-loop; other site 439235010692 H-loop/switch region; other site 439235010693 Methyltransferase domain; Region: Methyltransf_24; pfam13578 439235010694 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 439235010695 putative FMN binding site [chemical binding]; other site 439235010696 NADPH bind site [chemical binding]; other site 439235010697 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 439235010698 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 439235010699 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 439235010700 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 439235010701 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 439235010702 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 439235010703 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 439235010704 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235010705 Zn2+ binding site [ion binding]; other site 439235010706 Mg2+ binding site [ion binding]; other site 439235010707 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 439235010708 non-specific DNA binding site [nucleotide binding]; other site 439235010709 salt bridge; other site 439235010710 sequence-specific DNA binding site [nucleotide binding]; other site 439235010711 Cupin domain; Region: Cupin_2; pfam07883 439235010712 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 439235010713 homodimer interaction site [polypeptide binding]; other site 439235010714 cofactor binding site; other site 439235010715 NRDE protein; Region: NRDE; cl01315 439235010716 Macrophage migration inhibitory factor (MIF); Region: MIF; pfam01187 439235010717 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 439235010718 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 439235010719 Predicted permeases [General function prediction only]; Region: COG0679 439235010720 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 439235010721 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 439235010722 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 439235010723 Peptidase M16C associated; Region: M16C_assoc; pfam08367 439235010724 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 439235010725 RNA polymerase Rpc34 subunit; Region: RNA_pol_Rpc34; cl02127 439235010726 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 439235010727 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 439235010728 S-adenosylmethionine binding site [chemical binding]; other site 439235010729 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 439235010730 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 439235010731 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; pfam01258 439235010732 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 439235010733 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 439235010734 FeS/SAM binding site; other site 439235010735 cell division protein FtsZ; Validated; Region: PRK09330 439235010736 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 439235010737 nucleotide binding site [chemical binding]; other site 439235010738 SulA interaction site; other site 439235010739 cell division protein FtsA; Region: ftsA; TIGR01174 439235010740 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 439235010741 nucleotide binding site [chemical binding]; other site 439235010742 Cell division protein FtsA; Region: FtsA; pfam14450 439235010743 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 439235010744 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 439235010745 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 439235010746 FAD binding domain; Region: FAD_binding_4; pfam01565 439235010747 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 439235010748 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 439235010749 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 439235010750 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 439235010751 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 439235010752 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 439235010753 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 439235010754 active site 439235010755 homodimer interface [polypeptide binding]; other site 439235010756 cell division protein FtsW; Region: ftsW; TIGR02614 439235010757 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 439235010758 Indigoidine synthase A like protein; Region: Indigoidine_A; cl00983 439235010759 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 439235010760 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 439235010761 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 439235010762 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 439235010763 Mg++ binding site [ion binding]; other site 439235010764 putative catalytic motif [active] 439235010765 putative substrate binding site [chemical binding]; other site 439235010766 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 439235010767 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 439235010768 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 439235010769 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 439235010770 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 439235010771 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 439235010772 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 439235010773 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 439235010774 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 439235010775 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 439235010776 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 439235010777 Cell division protein FtsL; Region: FtsL; cl11433 439235010778 MraW methylase family; Region: Methyltransf_5; cl17771 439235010779 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 439235010780 cell division protein MraZ; Reviewed; Region: PRK00326 439235010781 MraZ protein; Region: MraZ; pfam02381 439235010782 MraZ protein; Region: MraZ; pfam02381 439235010783 TPR repeat; Region: TPR_11; pfam13414 439235010784 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 439235010785 TPR motif; other site 439235010786 TPR repeat; Region: TPR_11; pfam13414 439235010787 binding surface 439235010788 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 439235010789 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 439235010790 TolR protein; Region: tolR; TIGR02801 439235010791 TolA protein; Region: tolA_full; TIGR02794 439235010792 TonB C terminal; Region: TonB_2; pfam13103 439235010793 TonB C terminal; Region: TonB_2; pfam13103 439235010794 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 439235010795 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 439235010796 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 439235010797 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 439235010798 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 439235010799 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 439235010800 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 439235010801 ligand binding site [chemical binding]; other site 439235010802 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 439235010803 Tetratricopeptide repeat; Region: TPR_6; pfam13174 439235010804 Holliday junction resolvase; Reviewed; Region: ruvC; PRK00039 439235010805 active site 439235010806 putative DNA-binding cleft [nucleotide binding]; other site 439235010807 dimer interface [polypeptide binding]; other site 439235010808 Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]; Region: RuvA; COG0632 439235010809 RuvA N terminal domain; Region: RuvA_N; pfam01330 439235010810 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 439235010811 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 439235010812 Walker A motif; other site 439235010813 ATP binding site [chemical binding]; other site 439235010814 Walker B motif; other site 439235010815 arginine finger; other site 439235010816 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 439235010817 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 439235010818 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 439235010819 putative catalytic site [active] 439235010820 putative metal binding site [ion binding]; other site 439235010821 putative phosphate binding site [ion binding]; other site 439235010822 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 439235010823 putative active site [active] 439235010824 putative metal binding residues [ion binding]; other site 439235010825 signature motif; other site 439235010826 putative triphosphate binding site [ion binding]; other site 439235010827 dimer interface [polypeptide binding]; other site 439235010828 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 439235010829 putative Iron-sulfur protein interface [polypeptide binding]; other site 439235010830 proximal heme binding site [chemical binding]; other site 439235010831 distal heme binding site [chemical binding]; other site 439235010832 putative dimer interface [polypeptide binding]; other site 439235010833 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 439235010834 L-aspartate oxidase; Provisional; Region: PRK06175 439235010835 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 439235010836 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 439235010837 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 439235010838 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 439235010839 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 439235010840 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 439235010841 active site 439235010842 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 439235010843 protein binding site [polypeptide binding]; other site 439235010844 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 439235010845 putative substrate binding region [chemical binding]; other site 439235010846 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 439235010847 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 439235010848 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 439235010849 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 439235010850 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 439235010851 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 439235010852 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 439235010853 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 439235010854 catalytic residue [active] 439235010855 putative FPP diphosphate binding site; other site 439235010856 putative FPP binding hydrophobic cleft; other site 439235010857 dimer interface [polypeptide binding]; other site 439235010858 putative IPP diphosphate binding site; other site 439235010859 ribosome recycling factor; Reviewed; Region: frr; PRK00083 439235010860 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 439235010861 hinge region; other site 439235010862 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 439235010863 putative nucleotide binding site [chemical binding]; other site 439235010864 uridine monophosphate binding site [chemical binding]; other site 439235010865 homohexameric interface [polypeptide binding]; other site 439235010866 elongation factor Ts; Reviewed; Region: tsf; PRK12332 439235010867 UBA/TS-N domain; Region: UBA; pfam00627 439235010868 Elongation factor TS; Region: EF_TS; pfam00889 439235010869 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 439235010870 rRNA interaction site [nucleotide binding]; other site 439235010871 S8 interaction site; other site 439235010872 putative laminin-1 binding site; other site 439235010873 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 439235010874 enoyl-CoA hydratase; Provisional; Region: PRK06688 439235010875 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 439235010876 substrate binding site [chemical binding]; other site 439235010877 oxyanion hole (OAH) forming residues; other site 439235010878 trimer interface [polypeptide binding]; other site 439235010879 AMP-binding domain protein; Validated; Region: PRK07529 439235010880 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235010881 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 439235010882 acyl-activating enzyme (AAE) consensus motif; other site 439235010883 acyl-activating enzyme (AAE) consensus motif; other site 439235010884 putative AMP binding site [chemical binding]; other site 439235010885 putative active site [active] 439235010886 putative CoA binding site [chemical binding]; other site 439235010887 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 439235010888 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235010889 acyl-activating enzyme (AAE) consensus motif; other site 439235010890 AMP binding site [chemical binding]; other site 439235010891 active site 439235010892 CoA binding site [chemical binding]; other site 439235010893 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 439235010894 GAF domain; Region: GAF_3; pfam13492 439235010895 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 439235010896 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 439235010897 Walker A motif; other site 439235010898 ATP binding site [chemical binding]; other site 439235010899 Walker B motif; other site 439235010900 arginine finger; other site 439235010901 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235010902 Radical SAM superfamily; Region: Radical_SAM; pfam04055 439235010903 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 439235010904 FeS/SAM binding site; other site 439235010905 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 439235010906 binding surface 439235010907 TPR motif; other site 439235010908 TPR repeat; Region: TPR_11; pfam13414 439235010909 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 439235010910 binding surface 439235010911 TPR repeat; Region: TPR_11; pfam13414 439235010912 TPR motif; other site 439235010913 TPR repeat; Region: TPR_11; pfam13414 439235010914 TPR repeat; Region: TPR_11; pfam13414 439235010915 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 439235010916 binding surface 439235010917 TPR motif; other site 439235010918 TPR repeat; Region: TPR_11; pfam13414 439235010919 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 439235010920 binding surface 439235010921 TPR motif; other site 439235010922 TPR repeat; Region: TPR_11; pfam13414 439235010923 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 439235010924 uncharacterized ygcE-like proteins; Region: FGGY_ygcE_like; cd07779 439235010925 putative N- and C-terminal domain interface [polypeptide binding]; other site 439235010926 putative active site [active] 439235010927 MgATP binding site [chemical binding]; other site 439235010928 catalytic site [active] 439235010929 metal binding site [ion binding]; metal-binding site 439235010930 putative carbohydrate binding site [chemical binding]; other site 439235010931 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 439235010932 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 439235010933 FAD binding domain; Region: FAD_binding_4; pfam01565 439235010934 fatty acid metabolism regulator; Provisional; Region: PRK04984 439235010935 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439235010936 DNA-binding site [nucleotide binding]; DNA binding site 439235010937 FadR C-terminal domain; Region: FadR_C; pfam07840 439235010938 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 439235010939 Response regulator receiver domain; Region: Response_reg; pfam00072 439235010940 active site 439235010941 phosphorylation site [posttranslational modification] 439235010942 intermolecular recognition site; other site 439235010943 dimerization interface [polypeptide binding]; other site 439235010944 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 439235010945 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 439235010946 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 439235010947 active site 439235010948 metal binding site [ion binding]; metal-binding site 439235010949 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 439235010950 Ligand Binding Site [chemical binding]; other site 439235010951 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 439235010952 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 439235010953 motif II; other site 439235010954 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 439235010955 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 439235010956 putative acyl-acceptor binding pocket; other site 439235010957 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 439235010958 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 439235010959 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235010960 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235010961 active site 439235010962 acetyl-CoA acetyltransferase; Validated; Region: PRK06157 439235010963 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 439235010964 active site 439235010965 3-hydroxy-3-methylglutaryl CoA synthase [Lipid metabolism]; Region: PksG; COG3425 439235010966 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 439235010967 dimer interface [polypeptide binding]; other site 439235010968 active site 439235010969 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 439235010970 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 439235010971 DUF35 OB-fold domain; Region: DUF35; pfam01796 439235010972 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 439235010973 short chain dehydrogenase; Provisional; Region: PRK07791 439235010974 NAD binding site [chemical binding]; other site 439235010975 homodimer interface [polypeptide binding]; other site 439235010976 active site 439235010977 SCP-2 sterol transfer family; Region: SCP2; pfam02036 439235010978 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 439235010979 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 439235010980 dimer interaction site [polypeptide binding]; other site 439235010981 substrate-binding tunnel; other site 439235010982 active site 439235010983 catalytic site [active] 439235010984 substrate binding site [chemical binding]; other site 439235010985 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 439235010986 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 439235010987 NAD binding site [chemical binding]; other site 439235010988 homodimer interface [polypeptide binding]; other site 439235010989 active site 439235010990 SCP-2 sterol transfer family; Region: SCP2; pfam02036 439235010991 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235010992 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235010993 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 439235010994 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 439235010995 Surface antigen; Region: Bac_surface_Ag; pfam01103 439235010996 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 439235010997 Family of unknown function (DUF490); Region: DUF490; pfam04357 439235010998 Response regulator receiver domain; Region: Response_reg; pfam00072 439235010999 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 439235011000 active site 439235011001 phosphorylation site [posttranslational modification] 439235011002 intermolecular recognition site; other site 439235011003 dimerization interface [polypeptide binding]; other site 439235011004 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 439235011005 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 439235011006 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 439235011007 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 439235011008 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 439235011009 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 439235011010 FMN binding site [chemical binding]; other site 439235011011 active site 439235011012 catalytic residues [active] 439235011013 substrate binding site [chemical binding]; other site 439235011014 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 439235011015 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 439235011016 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 439235011017 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 439235011018 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 439235011019 active site 439235011020 chaperone protein DnaJ; Provisional; Region: PRK14294 439235011021 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 439235011022 HSP70 interaction site [polypeptide binding]; other site 439235011023 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 439235011024 substrate binding site [polypeptide binding]; other site 439235011025 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 439235011026 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 439235011027 dimer interface [polypeptide binding]; other site 439235011028 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 439235011029 PAS domain S-box; Region: sensory_box; TIGR00229 439235011030 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 439235011031 putative active site [active] 439235011032 heme pocket [chemical binding]; other site 439235011033 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 439235011034 ATP binding site [chemical binding]; other site 439235011035 G-X-G motif; other site 439235011036 Response regulator receiver domain; Region: Response_reg; pfam00072 439235011037 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 439235011038 active site 439235011039 phosphorylation site [posttranslational modification] 439235011040 intermolecular recognition site; other site 439235011041 dimerization interface [polypeptide binding]; other site 439235011042 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 439235011043 putative lipid binding site [chemical binding]; other site 439235011044 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 439235011045 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 439235011046 acyl-activating enzyme (AAE) consensus motif; other site 439235011047 putative AMP binding site [chemical binding]; other site 439235011048 putative active site [active] 439235011049 putative CoA binding site [chemical binding]; other site 439235011050 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 439235011051 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 439235011052 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 439235011053 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 439235011054 Ligand binding site [chemical binding]; other site 439235011055 Electron transfer flavoprotein domain; Region: ETF; pfam01012 439235011056 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 439235011057 Cysteine-rich domain; Region: CCG; pfam02754 439235011058 Cysteine-rich domain; Region: CCG; pfam02754 439235011059 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 439235011060 Protein of unknown function (DUF401); Region: DUF401; cl00830 439235011061 enoyl-CoA hydratase; Validated; Region: PRK08139 439235011062 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 439235011063 substrate binding site [chemical binding]; other site 439235011064 oxyanion hole (OAH) forming residues; other site 439235011065 trimer interface [polypeptide binding]; other site 439235011066 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 439235011067 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 439235011068 putative substrate translocation pore; other site 439235011069 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439235011070 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 439235011071 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 439235011072 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 439235011073 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 439235011074 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 439235011075 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 439235011076 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 439235011077 P-loop; other site 439235011078 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; cl11685 439235011079 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 439235011080 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 439235011081 binding surface 439235011082 TPR motif; other site 439235011083 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 439235011084 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 439235011085 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 439235011086 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 439235011087 substrate binding pocket [chemical binding]; other site 439235011088 chain length determination region; other site 439235011089 substrate-Mg2+ binding site; other site 439235011090 catalytic residues [active] 439235011091 aspartate-rich region 1; other site 439235011092 active site lid residues [active] 439235011093 aspartate-rich region 2; other site 439235011094 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 439235011095 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 439235011096 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 439235011097 FeS/SAM binding site; other site 439235011098 chaperone protein DnaJ; Provisional; Region: PRK14299 439235011099 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 439235011100 HSP70 interaction site [polypeptide binding]; other site 439235011101 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 439235011102 substrate binding site [polypeptide binding]; other site 439235011103 dimer interface [polypeptide binding]; other site 439235011104 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 439235011105 active site 439235011106 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 439235011107 Short C-terminal domain; Region: SHOCT; pfam09851 439235011108 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 439235011109 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 439235011110 ATP-grasp domain; Region: ATP-grasp_4; cl17255 439235011111 Flagellin N-methylase; Region: FliB; pfam03692 439235011112 Haemolytic domain; Region: Haemolytic; pfam01809 439235011113 Flagellin N-methylase; Region: FliB; pfam03692 439235011114 Cohesin domain, interaction parter of dockerin; Region: cohesin_like; cd08546 439235011115 dockerin binding interface; other site 439235011116 Cohesin domain, interaction parter of dockerin; Region: cohesin_like; cd08546 439235011117 dockerin binding interface; other site 439235011118 Cohesin domain, interaction parter of dockerin; Region: cohesin_like; cd08546 439235011119 dockerin binding interface; other site 439235011120 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_2; cd06160 439235011121 active site 439235011122 putative substrate binding region [chemical binding]; other site 439235011123 S-adenosylmethionine synthetase; Validated; Region: PRK05250 439235011124 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 439235011125 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 439235011126 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 439235011127 pantoate--beta-alanine ligase; Region: panC; TIGR00018 439235011128 Pantoate-beta-alanine ligase; Region: PanC; cd00560 439235011129 active site 439235011130 ATP-binding site [chemical binding]; other site 439235011131 pantoate-binding site; other site 439235011132 HXXH motif; other site 439235011133 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 439235011134 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 439235011135 active site 439235011136 catalytic triad [active] 439235011137 oxyanion hole [active] 439235011138 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 439235011139 putative FMN binding site [chemical binding]; other site 439235011140 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 439235011141 Transposase; Region: DEDD_Tnp_IS110; pfam01548 439235011142 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 439235011143 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 439235011144 active site 439235011145 metal binding site [ion binding]; metal-binding site 439235011146 homotetramer interface [polypeptide binding]; other site 439235011147 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 439235011148 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 439235011149 Catalytic site [active] 439235011150 Response regulator receiver domain; Region: Response_reg; pfam00072 439235011151 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 439235011152 active site 439235011153 phosphorylation site [posttranslational modification] 439235011154 intermolecular recognition site; other site 439235011155 dimerization interface [polypeptide binding]; other site 439235011156 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 439235011157 FAD binding site [chemical binding]; other site 439235011158 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 439235011159 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 439235011160 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 439235011161 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 439235011162 4Fe-4S binding domain; Region: Fer4; cl02805 439235011163 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 439235011164 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439235011165 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 439235011166 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 439235011167 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 439235011168 Ferredoxin [Energy production and conversion]; Region: COG1146 439235011169 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 439235011170 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 439235011171 FAD binding site [chemical binding]; other site 439235011172 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 439235011173 HDOD domain; Region: HDOD; pfam08668 439235011174 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235011175 Zn2+ binding site [ion binding]; other site 439235011176 Mg2+ binding site [ion binding]; other site 439235011177 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 439235011178 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235011179 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 439235011180 putative active site [active] 439235011181 heme pocket [chemical binding]; other site 439235011182 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 439235011183 dimer interface [polypeptide binding]; other site 439235011184 phosphorylation site [posttranslational modification] 439235011185 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 439235011186 ATP binding site [chemical binding]; other site 439235011187 Mg2+ binding site [ion binding]; other site 439235011188 G-X-G motif; other site 439235011189 Response regulator receiver domain; Region: Response_reg; pfam00072 439235011190 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 439235011191 active site 439235011192 phosphorylation site [posttranslational modification] 439235011193 intermolecular recognition site; other site 439235011194 dimerization interface [polypeptide binding]; other site 439235011195 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 439235011196 non-specific DNA binding site [nucleotide binding]; other site 439235011197 salt bridge; other site 439235011198 sequence-specific DNA binding site [nucleotide binding]; other site 439235011199 Cupin domain; Region: Cupin_2; pfam07883 439235011200 AMP-binding domain protein; Validated; Region: PRK08315 439235011201 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235011202 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 439235011203 acyl-activating enzyme (AAE) consensus motif; other site 439235011204 putative AMP binding site [chemical binding]; other site 439235011205 putative active site [active] 439235011206 putative CoA binding site [chemical binding]; other site 439235011207 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 439235011208 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235011209 active site 439235011210 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 439235011211 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 439235011212 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 439235011213 Walker A/P-loop; other site 439235011214 ATP binding site [chemical binding]; other site 439235011215 Q-loop/lid; other site 439235011216 ABC transporter signature motif; other site 439235011217 Walker B; other site 439235011218 D-loop; other site 439235011219 H-loop/switch region; other site 439235011220 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 439235011221 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 439235011222 Walker A/P-loop; other site 439235011223 ATP binding site [chemical binding]; other site 439235011224 Q-loop/lid; other site 439235011225 ABC transporter signature motif; other site 439235011226 Walker B; other site 439235011227 D-loop; other site 439235011228 H-loop/switch region; other site 439235011229 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 439235011230 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 439235011231 TM-ABC transporter signature motif; other site 439235011232 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 439235011233 TM-ABC transporter signature motif; other site 439235011234 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 439235011235 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 439235011236 putative ligand binding site [chemical binding]; other site 439235011237 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 439235011238 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 439235011239 dimer interface [polypeptide binding]; other site 439235011240 acyl-activating enzyme (AAE) consensus motif; other site 439235011241 putative active site [active] 439235011242 AMP binding site [chemical binding]; other site 439235011243 putative CoA binding site [chemical binding]; other site 439235011244 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235011245 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235011246 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 439235011247 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 439235011248 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 439235011249 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235011250 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 439235011251 active site 439235011252 phosphorylation site [posttranslational modification] 439235011253 intermolecular recognition site; other site 439235011254 dimerization interface [polypeptide binding]; other site 439235011255 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 439235011256 dimer interface [polypeptide binding]; other site 439235011257 phosphorylation site [posttranslational modification] 439235011258 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 439235011259 ATP binding site [chemical binding]; other site 439235011260 Mg2+ binding site [ion binding]; other site 439235011261 G-X-G motif; other site 439235011262 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 439235011263 dimerization interface [polypeptide binding]; other site 439235011264 PAS domain S-box; Region: sensory_box; TIGR00229 439235011265 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 439235011266 putative active site [active] 439235011267 heme pocket [chemical binding]; other site 439235011268 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 439235011269 PAS domain; Region: PAS_9; pfam13426 439235011270 putative active site [active] 439235011271 heme pocket [chemical binding]; other site 439235011272 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235011273 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 439235011274 ATP binding site [chemical binding]; other site 439235011275 Mg2+ binding site [ion binding]; other site 439235011276 G-X-G motif; other site 439235011277 Domain of unknown function (DUF4272); Region: DUF4272; pfam14094 439235011278 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 439235011279 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 439235011280 NAD(P) binding site [chemical binding]; other site 439235011281 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 439235011282 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 439235011283 dimerization interface [polypeptide binding]; other site 439235011284 ATP binding site [chemical binding]; other site 439235011285 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 439235011286 dimerization interface [polypeptide binding]; other site 439235011287 ATP binding site [chemical binding]; other site 439235011288 CobB/CobQ-like glutamine amidotransferase domain; Region: GATase_5; pfam13507 439235011289 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 439235011290 putative active site [active] 439235011291 catalytic triad [active] 439235011292 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; cd02065 439235011293 B12 binding site [chemical binding]; other site 439235011294 PAS domain; Region: PAS_9; pfam13426 439235011295 PAS domain; Region: PAS_9; pfam13426 439235011296 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 439235011297 putative active site [active] 439235011298 heme pocket [chemical binding]; other site 439235011299 histidine kinase; Provisional; Region: PRK13557 439235011300 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 439235011301 putative active site [active] 439235011302 heme pocket [chemical binding]; other site 439235011303 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 439235011304 dimer interface [polypeptide binding]; other site 439235011305 phosphorylation site [posttranslational modification] 439235011306 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 439235011307 ATP binding site [chemical binding]; other site 439235011308 Mg2+ binding site [ion binding]; other site 439235011309 G-X-G motif; other site 439235011310 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 439235011311 active site 439235011312 phosphorylation site [posttranslational modification] 439235011313 intermolecular recognition site; other site 439235011314 dimerization interface [polypeptide binding]; other site 439235011315 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 439235011316 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 439235011317 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 439235011318 ATP binding site [chemical binding]; other site 439235011319 putative Mg++ binding site [ion binding]; other site 439235011320 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 439235011321 nucleotide binding region [chemical binding]; other site 439235011322 Response regulator receiver domain; Region: Response_reg; pfam00072 439235011323 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 439235011324 active site 439235011325 phosphorylation site [posttranslational modification] 439235011326 intermolecular recognition site; other site 439235011327 dimerization interface [polypeptide binding]; other site 439235011328 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 439235011329 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 439235011330 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 439235011331 cheY-homologous receiver domain; Region: REC; smart00448 439235011332 phosphorylation site [posttranslational modification] 439235011333 intermolecular recognition site; other site 439235011334 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 439235011335 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 439235011336 Walker A motif; other site 439235011337 ATP binding site [chemical binding]; other site 439235011338 Walker B motif; other site 439235011339 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 439235011340 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 439235011341 Walker A motif; other site 439235011342 ATP binding site [chemical binding]; other site 439235011343 Walker B motif; other site 439235011344 DivIVA protein; Region: DivIVA; pfam05103 439235011345 DivIVA domain; Region: DivI1A_domain; TIGR03544 439235011346 YGGT family; Region: YGGT; pfam02325 439235011347 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 439235011348 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 439235011349 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 439235011350 homotetramer interface [polypeptide binding]; other site 439235011351 NAD(P) binding site [chemical binding]; other site 439235011352 homodimer interface [polypeptide binding]; other site 439235011353 active site 439235011354 acyl carrier protein; Provisional; Region: acpP; PRK00982 439235011355 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 439235011356 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 439235011357 dimer interface [polypeptide binding]; other site 439235011358 active site 439235011359 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 439235011360 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 439235011361 dimer interface [polypeptide binding]; other site 439235011362 active site 439235011363 glycine-pyridoxal phosphate binding site [chemical binding]; other site 439235011364 folate binding site [chemical binding]; other site 439235011365 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 439235011366 ATP cone domain; Region: ATP-cone; pfam03477 439235011367 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 439235011368 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 439235011369 catalytic motif [active] 439235011370 Zn binding site [ion binding]; other site 439235011371 RibD C-terminal domain; Region: RibD_C; cl17279 439235011372 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 439235011373 Lumazine binding domain; Region: Lum_binding; pfam00677 439235011374 Lumazine binding domain; Region: Lum_binding; pfam00677 439235011375 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 439235011376 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 439235011377 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 439235011378 dimerization interface [polypeptide binding]; other site 439235011379 active site 439235011380 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 439235011381 homopentamer interface [polypeptide binding]; other site 439235011382 active site 439235011383 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 439235011384 putative RNA binding site [nucleotide binding]; other site 439235011385 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235011386 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235011387 active site 439235011388 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 439235011389 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 439235011390 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 439235011391 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 439235011392 Ligand binding site [chemical binding]; other site 439235011393 Electron transfer flavoprotein domain; Region: ETF; pfam01012 439235011394 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 439235011395 Cysteine-rich domain; Region: CCG; pfam02754 439235011396 Cysteine-rich domain; Region: CCG; pfam02754 439235011397 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 439235011398 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 439235011399 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235011400 active site 439235011401 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 439235011402 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439235011403 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 439235011404 Methyltransferase domain; Region: Methyltransf_23; pfam13489 439235011405 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 439235011406 S-adenosylmethionine binding site [chemical binding]; other site 439235011407 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 439235011408 PhoH-like protein; Region: PhoH; pfam02562 439235011409 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 439235011410 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 439235011411 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235011412 Zn2+ binding site [ion binding]; other site 439235011413 Mg2+ binding site [ion binding]; other site 439235011414 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 439235011415 pyridoxine 5'-phosphate synthase; Provisional; Region: PRK05265 439235011416 active site 439235011417 hydrophilic channel; other site 439235011418 dimerization interface [polypeptide binding]; other site 439235011419 catalytic residues [active] 439235011420 active site lid [active] 439235011421 putative carbohydrate kinase; Provisional; Region: PRK10565 439235011422 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 439235011423 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 439235011424 putative substrate binding site [chemical binding]; other site 439235011425 putative ATP binding site [chemical binding]; other site 439235011426 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 439235011427 aspartate kinase; Reviewed; Region: PRK06635 439235011428 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 439235011429 putative nucleotide binding site [chemical binding]; other site 439235011430 putative catalytic residues [active] 439235011431 putative Mg ion binding site [ion binding]; other site 439235011432 putative aspartate binding site [chemical binding]; other site 439235011433 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 439235011434 putative allosteric regulatory site; other site 439235011435 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 439235011436 putative allosteric regulatory residue; other site 439235011437 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 439235011438 active site 439235011439 dimer interface [polypeptide binding]; other site 439235011440 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 439235011441 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235011442 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 439235011443 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 439235011444 putative AMP binding site [chemical binding]; other site 439235011445 putative active site [active] 439235011446 acyl-activating enzyme (AAE) consensus motif; other site 439235011447 putative CoA binding site [chemical binding]; other site 439235011448 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 439235011449 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 439235011450 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 439235011451 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 439235011452 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439235011453 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 439235011454 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 439235011455 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235011456 active site 439235011457 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 439235011458 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 439235011459 active site 439235011460 metal binding site [ion binding]; metal-binding site 439235011461 homotetramer interface [polypeptide binding]; other site 439235011462 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 439235011463 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 439235011464 active site 439235011465 PHP-associated; Region: PHP_C; pfam13263 439235011466 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 439235011467 active site 2 [active] 439235011468 active site 1 [active] 439235011469 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 439235011470 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 439235011471 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 439235011472 DUF35 OB-fold domain; Region: DUF35; pfam01796 439235011473 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 439235011474 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 439235011475 DUF35 OB-fold domain; Region: DUF35; pfam01796 439235011476 acetyl-CoA acetyltransferase; Provisional; Region: PRK08313 439235011477 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 439235011478 active site 439235011479 acetyl-CoA acetyltransferase; Provisional; Region: PRK06066 439235011480 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 439235011481 active site 439235011482 putative acyltransferase; Provisional; Region: PRK05790 439235011483 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 439235011484 dimer interface [polypeptide binding]; other site 439235011485 active site 439235011486 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 439235011487 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 439235011488 substrate binding site [chemical binding]; other site 439235011489 oxyanion hole (OAH) forming residues; other site 439235011490 trimer interface [polypeptide binding]; other site 439235011491 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 439235011492 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 439235011493 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 439235011494 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 439235011495 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235011496 active site 439235011497 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235011498 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235011499 active site 439235011500 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 439235011501 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 439235011502 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235011503 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235011504 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235011505 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235011506 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235011507 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 439235011508 enoyl-CoA hydratase; Provisional; Region: PRK06688 439235011509 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 439235011510 substrate binding site [chemical binding]; other site 439235011511 oxyanion hole (OAH) forming residues; other site 439235011512 trimer interface [polypeptide binding]; other site 439235011513 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 439235011514 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 439235011515 Interdomain contacts; other site 439235011516 Cytokine receptor motif; other site 439235011517 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 439235011518 Interdomain contacts; other site 439235011519 Cytokine receptor motif; other site 439235011520 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 439235011521 Interdomain contacts; other site 439235011522 Cytokine receptor motif; other site 439235011523 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 439235011524 Interdomain contacts; other site 439235011525 Cytokine receptor motif; other site 439235011526 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 439235011527 Interdomain contacts; other site 439235011528 Cytokine receptor motif; other site 439235011529 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 439235011530 Interdomain contacts; other site 439235011531 Cytokine receptor motif; other site 439235011532 Cna protein B-type domain; Region: Cna_B_2; pfam13715 439235011533 (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. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 439235011534 active site 439235011535 catalytic site [active] 439235011536 (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. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 439235011537 active site 439235011538 catalytic site [active] 439235011539 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235011540 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235011541 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 439235011542 amidase catalytic site [active] 439235011543 Zn binding residues [ion binding]; other site 439235011544 substrate binding site [chemical binding]; other site 439235011545 Transposase [DNA replication, recombination, and repair]; Region: COG5421 439235011546 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 439235011547 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 439235011548 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 439235011549 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439235011550 NAD(P) binding site [chemical binding]; other site 439235011551 active site 439235011552 enoyl-CoA hydratase; Provisional; Region: PRK07509 439235011553 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 439235011554 substrate binding site [chemical binding]; other site 439235011555 oxyanion hole (OAH) forming residues; other site 439235011556 trimer interface [polypeptide binding]; other site 439235011557 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 439235011558 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235011559 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235011560 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 439235011561 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 439235011562 metal binding triad; other site 439235011563 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 439235011564 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 439235011565 metal binding triad; other site 439235011566 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 439235011567 Uncharacterized conserved protein [Function unknown]; Region: COG1262 439235011568 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 439235011569 aspartate aminotransferase; Provisional; Region: PRK05764 439235011570 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 439235011571 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235011572 homodimer interface [polypeptide binding]; other site 439235011573 catalytic residue [active] 439235011574 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 439235011575 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 439235011576 RNA binding surface [nucleotide binding]; other site 439235011577 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 439235011578 active site 439235011579 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 439235011580 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 439235011581 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 439235011582 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 439235011583 putative active site [active] 439235011584 catalytic residue [active] 439235011585 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 439235011586 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 439235011587 5S rRNA interface [nucleotide binding]; other site 439235011588 CTC domain interface [polypeptide binding]; other site 439235011589 L16 interface [polypeptide binding]; other site 439235011590 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 439235011591 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 439235011592 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 439235011593 active site 439235011594 4-diphosphocytidyl-2C-methyl-D-erythritol 2-phosphate synthase [Lipid metabolism]; Region: IspE; COG1947 439235011595 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 439235011596 Domain of unknown function (DUF1844); Region: DUF1844; pfam08899 439235011597 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 439235011598 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 439235011599 ligand binding site [chemical binding]; other site 439235011600 NAD binding site [chemical binding]; other site 439235011601 dimerization interface [polypeptide binding]; other site 439235011602 catalytic site [active] 439235011603 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 439235011604 putative L-serine binding site [chemical binding]; other site 439235011605 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 439235011606 homodimer interface [polypeptide binding]; other site 439235011607 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 439235011608 substrate-cofactor binding pocket; other site 439235011609 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235011610 catalytic residue [active] 439235011611 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 439235011612 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 439235011613 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235011614 active site 439235011615 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 439235011616 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 439235011617 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 439235011618 FMN binding site [chemical binding]; other site 439235011619 substrate binding site [chemical binding]; other site 439235011620 putative catalytic residue [active] 439235011621 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235011622 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 439235011623 acyl-activating enzyme (AAE) consensus motif; other site 439235011624 AMP binding site [chemical binding]; other site 439235011625 active site 439235011626 CoA binding site [chemical binding]; other site 439235011627 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 439235011628 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 439235011629 active site 2 [active] 439235011630 active site 1 [active] 439235011631 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 439235011632 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 439235011633 DUF35 OB-fold domain; Region: DUF35; pfam01796 439235011634 thiolase; Provisional; Region: PRK06158 439235011635 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 439235011636 active site 439235011637 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 439235011638 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439235011639 NAD(P) binding site [chemical binding]; other site 439235011640 active site 439235011641 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235011642 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235011643 active site 439235011644 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235011645 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235011646 active site 439235011647 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 439235011648 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235011649 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 439235011650 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 439235011651 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 439235011652 TPR motif; other site 439235011653 binding surface 439235011654 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 439235011655 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 439235011656 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 439235011657 Walker A motif; other site 439235011658 ATP binding site [chemical binding]; other site 439235011659 Walker B motif; other site 439235011660 arginine finger; other site 439235011661 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235011662 Transposase IS200 like; Region: Y1_Tnp; pfam01797 439235011663 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 439235011664 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 439235011665 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 439235011666 putative active site [active] 439235011667 PhoH-like protein; Region: PhoH; pfam02562 439235011668 Uncharacterized conserved protein [Function unknown]; Region: COG2006 439235011669 Domain of unknown function (DUF362); Region: DUF362; pfam04015 439235011670 NMT1/THI5 like; Region: NMT1; pfam09084 439235011671 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 439235011672 Cache domain; Region: Cache_1; pfam02743 439235011673 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 439235011674 dimerization interface [polypeptide binding]; other site 439235011675 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 439235011676 dimer interface [polypeptide binding]; other site 439235011677 phosphorylation site [posttranslational modification] 439235011678 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 439235011679 ATP binding site [chemical binding]; other site 439235011680 Mg2+ binding site [ion binding]; other site 439235011681 G-X-G motif; other site 439235011682 Response regulator receiver domain; Region: Response_reg; pfam00072 439235011683 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 439235011684 active site 439235011685 phosphorylation site [posttranslational modification] 439235011686 intermolecular recognition site; other site 439235011687 dimerization interface [polypeptide binding]; other site 439235011688 Response regulator receiver domain; Region: Response_reg; pfam00072 439235011689 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 439235011690 active site 439235011691 phosphorylation site [posttranslational modification] 439235011692 intermolecular recognition site; other site 439235011693 dimerization interface [polypeptide binding]; other site 439235011694 PAS domain S-box; Region: sensory_box; TIGR00229 439235011695 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 439235011696 putative active site [active] 439235011697 heme pocket [chemical binding]; other site 439235011698 PAS fold; Region: PAS_3; pfam08447 439235011699 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 439235011700 putative active site [active] 439235011701 heme pocket [chemical binding]; other site 439235011702 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 439235011703 dimer interface [polypeptide binding]; other site 439235011704 phosphorylation site [posttranslational modification] 439235011705 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 439235011706 ATP binding site [chemical binding]; other site 439235011707 Mg2+ binding site [ion binding]; other site 439235011708 G-X-G motif; other site 439235011709 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235011710 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 439235011711 active site 439235011712 phosphorylation site [posttranslational modification] 439235011713 intermolecular recognition site; other site 439235011714 dimerization interface [polypeptide binding]; other site 439235011715 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14168 439235011716 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 439235011717 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 439235011718 homodimer interface [polypeptide binding]; other site 439235011719 NADP binding site [chemical binding]; other site 439235011720 substrate binding site [chemical binding]; other site 439235011721 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 439235011722 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 439235011723 NAD binding site [chemical binding]; other site 439235011724 putative substrate binding site 2 [chemical binding]; other site 439235011725 putative substrate binding site 1 [chemical binding]; other site 439235011726 active site 439235011727 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 439235011728 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 439235011729 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 439235011730 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 439235011731 aspartate aminotransferase; Provisional; Region: PRK05764 439235011732 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 439235011733 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235011734 homodimer interface [polypeptide binding]; other site 439235011735 catalytic residue [active] 439235011736 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 439235011737 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 439235011738 G1 box; other site 439235011739 GTP/Mg2+ binding site [chemical binding]; other site 439235011740 Switch I region; other site 439235011741 G2 box; other site 439235011742 G3 box; other site 439235011743 Switch II region; other site 439235011744 G4 box; other site 439235011745 G5 box; other site 439235011746 GTPase Era; Reviewed; Region: era; PRK00089 439235011747 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 439235011748 G1 box; other site 439235011749 GTP/Mg2+ binding site [chemical binding]; other site 439235011750 Switch I region; other site 439235011751 G2 box; other site 439235011752 Switch II region; other site 439235011753 G3 box; other site 439235011754 G4 box; other site 439235011755 G5 box; other site 439235011756 KH domain; Region: KH_2; pfam07650 439235011757 ATP-grasp domain; Region: ATP-grasp_4; cl17255 439235011758 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 439235011759 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 439235011760 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 439235011761 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 439235011762 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 439235011763 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 439235011764 HlyD family secretion protein; Region: HlyD_3; pfam13437 439235011765 MarR family; Region: MarR; pfam01047 439235011766 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 439235011767 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439235011768 putative substrate translocation pore; other site 439235011769 AAA domain; Region: AAA_25; pfam13481 439235011770 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 439235011771 Walker A motif; other site 439235011772 ATP binding site [chemical binding]; other site 439235011773 Walker B motif; other site 439235011774 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 439235011775 elongation factor G; Reviewed; Region: PRK12740 439235011776 G1 box; other site 439235011777 putative GEF interaction site [polypeptide binding]; other site 439235011778 GTP/Mg2+ binding site [chemical binding]; other site 439235011779 Switch I region; other site 439235011780 G2 box; other site 439235011781 G3 box; other site 439235011782 Switch II region; other site 439235011783 G4 box; other site 439235011784 G5 box; other site 439235011785 mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating...; Region: mtEFG1_II_like; cd04091 439235011786 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 439235011787 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 439235011788 Putative Fe-S cluster; Region: FeS; cl17515 439235011789 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 439235011790 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 439235011791 DNA binding residues [nucleotide binding] 439235011792 dimerization interface [polypeptide binding]; other site 439235011793 Cysteine-rich domain; Region: CCG; pfam02754 439235011794 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 439235011795 Cysteine-rich domain; Region: CCG; pfam02754 439235011796 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 439235011797 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 439235011798 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 439235011799 Transposase IS200 like; Region: Y1_Tnp; cl00848 439235011800 Transposase IS200 like; Region: Y1_Tnp; cl00848 439235011801 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235011802 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235011803 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235011804 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 439235011805 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 439235011806 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235011807 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235011808 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 439235011809 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235011810 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235011811 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 439235011812 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235011813 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235011814 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235011815 Thrombospondin type 3 repeat; Region: TSP_3; pfam02412 439235011816 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 439235011817 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235011818 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235011819 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 439235011820 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235011821 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235011822 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235011823 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 439235011824 Thrombospondin type 3 repeat; Region: TSP_3; pfam02412 439235011825 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 439235011826 TPR repeat; Region: TPR_11; pfam13414 439235011827 binding surface 439235011828 TPR motif; other site 439235011829 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 439235011830 binding surface 439235011831 TPR motif; other site 439235011832 TPR repeat; Region: TPR_11; pfam13414 439235011833 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 439235011834 binding surface 439235011835 TPR repeat; Region: TPR_11; pfam13414 439235011836 TPR motif; other site 439235011837 CutA1 divalent ion tolerance protein; Region: CutA1; pfam03091 439235011838 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 439235011839 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 439235011840 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 439235011841 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 439235011842 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 439235011843 Helix-turn-helix domain; Region: HTH_37; pfam13744 439235011844 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 439235011845 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 439235011846 Clp amino terminal domain; Region: Clp_N; pfam02861 439235011847 Clp amino terminal domain; Region: Clp_N; pfam02861 439235011848 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 439235011849 Walker A motif; other site 439235011850 ATP binding site [chemical binding]; other site 439235011851 Walker B motif; other site 439235011852 arginine finger; other site 439235011853 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 439235011854 Walker A motif; other site 439235011855 ATP binding site [chemical binding]; other site 439235011856 Walker B motif; other site 439235011857 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 439235011858 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 439235011859 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 439235011860 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 439235011861 Predicted aspartyl protease [General function prediction only]; Region: COG3577 439235011862 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 439235011863 catalytic motif [active] 439235011864 Catalytic residue [active] 439235011865 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 439235011866 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 439235011867 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 439235011868 tRNA; other site 439235011869 putative tRNA binding site [nucleotide binding]; other site 439235011870 putative NADP binding site [chemical binding]; other site 439235011871 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 439235011872 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 439235011873 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 439235011874 Response regulator receiver domain; Region: Response_reg; pfam00072 439235011875 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 439235011876 active site 439235011877 phosphorylation site [posttranslational modification] 439235011878 intermolecular recognition site; other site 439235011879 dimerization interface [polypeptide binding]; other site 439235011880 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 439235011881 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 439235011882 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar1_1; cd09156 439235011883 putative active site [active] 439235011884 catalytic site [active] 439235011885 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar1_2; cd09162 439235011886 putative active site [active] 439235011887 catalytic site [active] 439235011888 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 439235011889 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 439235011890 active site 439235011891 HIGH motif; other site 439235011892 nucleotide binding site [chemical binding]; other site 439235011893 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 439235011894 KMSKS motif; other site 439235011895 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 439235011896 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 439235011897 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 439235011898 putative active site [active] 439235011899 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 439235011900 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK06830 439235011901 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 439235011902 active site 439235011903 ADP/pyrophosphate binding site [chemical binding]; other site 439235011904 dimerization interface [polypeptide binding]; other site 439235011905 allosteric effector site; other site 439235011906 fructose-1,6-bisphosphate binding site; other site 439235011907 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 439235011908 D-galactonate transporter; Region: 2A0114; TIGR00893 439235011909 putative substrate translocation pore; other site 439235011910 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 439235011911 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 439235011912 PYR/PP interface [polypeptide binding]; other site 439235011913 dimer interface [polypeptide binding]; other site 439235011914 TPP binding site [chemical binding]; other site 439235011915 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 439235011916 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 439235011917 TPP-binding site; other site 439235011918 dimer interface [polypeptide binding]; other site 439235011919 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 439235011920 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439235011921 NAD(P) binding site [chemical binding]; other site 439235011922 active site 439235011923 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439235011924 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 439235011925 ligand binding site [chemical binding]; other site 439235011926 flexible hinge region; other site 439235011927 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 439235011928 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 439235011929 substrate binding site [polypeptide binding]; other site 439235011930 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 439235011931 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 439235011932 fumarate hydratase; Provisional; Region: PRK15389 439235011933 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 439235011934 Fumarase C-terminus; Region: Fumerase_C; pfam05683 439235011935 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 439235011936 metal binding site 2 [ion binding]; metal-binding site 439235011937 putative DNA binding helix; other site 439235011938 metal binding site 1 [ion binding]; metal-binding site 439235011939 dimer interface [polypeptide binding]; other site 439235011940 structural Zn2+ binding site [ion binding]; other site 439235011941 Rubredoxin [Energy production and conversion]; Region: COG1773 439235011942 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 439235011943 iron binding site [ion binding]; other site 439235011944 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 439235011945 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 439235011946 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 439235011947 pyrroline-5-carboxylate reductase; Region: PLN02688 439235011948 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 439235011949 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 439235011950 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 439235011951 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 439235011952 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 439235011953 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 439235011954 Part of AAA domain; Region: AAA_19; pfam13245 439235011955 Family description; Region: UvrD_C_2; pfam13538 439235011956 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 439235011957 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 439235011958 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 439235011959 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 439235011960 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 439235011961 binding surface 439235011962 TPR motif; other site 439235011963 Tetratricopeptide repeat; Region: TPR_16; pfam13432 439235011964 Bacterial SH3 domain homologues; Region: SH3b; smart00287 439235011965 Oxygen tolerance; Region: BatD; pfam13584 439235011966 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 439235011967 TPR motif; other site 439235011968 binding surface 439235011969 TPR repeat; Region: TPR_11; pfam13414 439235011970 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 439235011971 metal ion-dependent adhesion site (MIDAS); other site 439235011972 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 439235011973 metal ion-dependent adhesion site (MIDAS); other site 439235011974 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 439235011975 Protein of unknown function DUF58; Region: DUF58; pfam01882 439235011976 MoxR-like ATPases [General function prediction only]; Region: COG0714 439235011977 ATPase family associated with various cellular activities (AAA); Region: AAA_3; pfam07726 439235011978 ATP binding site [chemical binding]; other site 439235011979 Walker A motif; other site 439235011980 Walker B motif; other site 439235011981 arginine finger; other site 439235011982 Uncharacterized conserved protein [Function unknown]; Region: COG1262 439235011983 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 439235011984 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235011985 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 439235011986 binding surface 439235011987 TPR motif; other site 439235011988 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 439235011989 Peptidase M15; Region: Peptidase_M15_3; cl01194 439235011990 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 439235011991 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 439235011992 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 439235011993 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 439235011994 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 439235011995 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 439235011996 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 439235011997 catalytic site [active] 439235011998 subunit interface [polypeptide binding]; other site 439235011999 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 439235012000 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 439235012001 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 439235012002 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 439235012003 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 439235012004 ATP-grasp domain; Region: ATP-grasp_4; cl17255 439235012005 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 439235012006 IMP binding site; other site 439235012007 dimer interface [polypeptide binding]; other site 439235012008 interdomain contacts; other site 439235012009 partial ornithine binding site; other site 439235012010 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 439235012011 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 439235012012 active site 439235012013 tetramer interface [polypeptide binding]; other site 439235012014 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 439235012015 active site 439235012016 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 439235012017 nicotinamide-nucleotide adenylyltransferase, NadR type; Region: nadR_NMN_Atrans; TIGR01526 439235012018 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 439235012019 active site 439235012020 nucleotide binding site [chemical binding]; other site 439235012021 HIGH motif; other site 439235012022 KMSKS motif; other site 439235012023 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 439235012024 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 439235012025 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 439235012026 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 439235012027 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 439235012028 enoyl-CoA hydratase; Provisional; Region: PRK07658 439235012029 substrate binding site [chemical binding]; other site 439235012030 oxyanion hole (OAH) forming residues; other site 439235012031 trimer interface [polypeptide binding]; other site 439235012032 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 439235012033 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 439235012034 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 439235012035 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 439235012036 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 439235012037 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 439235012038 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 439235012039 ATP binding site [chemical binding]; other site 439235012040 putative Mg++ binding site [ion binding]; other site 439235012041 C-terminal putative phospholipase D-like domain of uncharacterized prokaryotic HKD family nucleases fused to DEAD/DEAH box helicases; Region: PLDc_C_DEXD_like; cd09126 439235012042 PLD-like domain; Region: PLDc_2; pfam13091 439235012043 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 439235012044 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235012045 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 439235012046 acyl-activating enzyme (AAE) consensus motif; other site 439235012047 putative AMP binding site [chemical binding]; other site 439235012048 putative active site [active] 439235012049 putative CoA binding site [chemical binding]; other site 439235012050 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 439235012051 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 439235012052 dimerization interface 3.5A [polypeptide binding]; other site 439235012053 active site 439235012054 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 439235012055 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439235012056 DNA-binding site [nucleotide binding]; DNA binding site 439235012057 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 439235012058 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235012059 homodimer interface [polypeptide binding]; other site 439235012060 catalytic residue [active] 439235012061 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439235012062 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 439235012063 substrate binding pocket [chemical binding]; other site 439235012064 membrane-bound complex binding site; other site 439235012065 hinge residues; other site 439235012066 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 439235012067 PAS fold; Region: PAS_3; pfam08447 439235012068 putative active site [active] 439235012069 heme pocket [chemical binding]; other site 439235012070 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 439235012071 GAF domain; Region: GAF; pfam01590 439235012072 PAS domain S-box; Region: sensory_box; TIGR00229 439235012073 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 439235012074 putative active site [active] 439235012075 heme pocket [chemical binding]; other site 439235012076 PAS domain; Region: PAS; smart00091 439235012077 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235012078 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 439235012079 dimer interface [polypeptide binding]; other site 439235012080 phosphorylation site [posttranslational modification] 439235012081 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 439235012082 ATP binding site [chemical binding]; other site 439235012083 Mg2+ binding site [ion binding]; other site 439235012084 G-X-G motif; other site 439235012085 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 439235012086 GAF domain; Region: GAF; pfam01590 439235012087 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 439235012088 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 439235012089 putative active site [active] 439235012090 heme pocket [chemical binding]; other site 439235012091 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 439235012092 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 439235012093 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 439235012094 ATP binding site [chemical binding]; other site 439235012095 Mg2+ binding site [ion binding]; other site 439235012096 G-X-G motif; other site 439235012097 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 439235012098 anti sigma factor interaction site; other site 439235012099 regulatory phosphorylation site [posttranslational modification]; other site 439235012100 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 439235012101 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 439235012102 Walker A/P-loop; other site 439235012103 ATP binding site [chemical binding]; other site 439235012104 Q-loop/lid; other site 439235012105 ABC transporter signature motif; other site 439235012106 Walker B; other site 439235012107 D-loop; other site 439235012108 H-loop/switch region; other site 439235012109 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 439235012110 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 439235012111 Walker A/P-loop; other site 439235012112 ATP binding site [chemical binding]; other site 439235012113 Q-loop/lid; other site 439235012114 ABC transporter signature motif; other site 439235012115 Walker B; other site 439235012116 D-loop; other site 439235012117 H-loop/switch region; other site 439235012118 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 439235012119 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 439235012120 putative ligand binding site [chemical binding]; other site 439235012121 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439235012122 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 439235012123 TM-ABC transporter signature motif; other site 439235012124 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 439235012125 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439235012126 TM-ABC transporter signature motif; other site 439235012127 Transposase IS200 like; Region: Y1_Tnp; cl00848 439235012128 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; cl07055 439235012129 DnaA box-binding interface [nucleotide binding]; other site 439235012130 Transposase IS200 like; Region: Y1_Tnp; cl00848 439235012131 Protein of unknown function (DUF3969); Region: DUF3969; pfam13108 439235012132 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 439235012133 RHS protein; Region: RHS; pfam03527 439235012134 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 439235012135 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 439235012136 protein-splicing catalytic site; other site 439235012137 thioester formation/cholesterol transfer; other site 439235012138 Pretoxin HINT domain; Region: PT-HINT; pfam07591 439235012139 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 439235012140 substrate binding site [chemical binding]; other site 439235012141 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 439235012142 Uncharacterized conserved protein [Function unknown]; Region: COG2006 439235012143 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 439235012144 dimer interface [polypeptide binding]; other site 439235012145 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 439235012146 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 439235012147 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 439235012148 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 439235012149 dimerization interface [polypeptide binding]; other site 439235012150 PAS domain S-box; Region: sensory_box; TIGR00229 439235012151 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 439235012152 putative active site [active] 439235012153 heme pocket [chemical binding]; other site 439235012154 PAS fold; Region: PAS; pfam00989 439235012155 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 439235012156 putative active site [active] 439235012157 heme pocket [chemical binding]; other site 439235012158 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235012159 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 439235012160 dimer interface [polypeptide binding]; other site 439235012161 phosphorylation site [posttranslational modification] 439235012162 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 439235012163 ATP binding site [chemical binding]; other site 439235012164 Mg2+ binding site [ion binding]; other site 439235012165 G-X-G motif; other site 439235012166 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235012167 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 439235012168 active site 439235012169 phosphorylation site [posttranslational modification] 439235012170 intermolecular recognition site; other site 439235012171 dimerization interface [polypeptide binding]; other site 439235012172 Rubrerythrin [Energy production and conversion]; Region: COG1592 439235012173 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 439235012174 binuclear metal center [ion binding]; other site 439235012175 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 439235012176 iron binding site [ion binding]; other site 439235012177 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 439235012178 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 439235012179 PYR/PP interface [polypeptide binding]; other site 439235012180 dimer interface [polypeptide binding]; other site 439235012181 tetramer interface [polypeptide binding]; other site 439235012182 TPP binding site [chemical binding]; other site 439235012183 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 439235012184 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; cl01629 439235012185 TPP-binding site [chemical binding]; other site 439235012186 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 439235012187 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 439235012188 N-terminal plug; other site 439235012189 ligand-binding site [chemical binding]; other site 439235012190 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 439235012191 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 439235012192 N-terminal plug; other site 439235012193 ligand-binding site [chemical binding]; other site 439235012194 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 439235012195 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 439235012196 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 439235012197 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 439235012198 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 439235012199 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 439235012200 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 439235012201 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 439235012202 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 439235012203 Walker A/P-loop; other site 439235012204 ATP binding site [chemical binding]; other site 439235012205 Q-loop/lid; other site 439235012206 ABC transporter signature motif; other site 439235012207 Walker B; other site 439235012208 D-loop; other site 439235012209 H-loop/switch region; other site 439235012210 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 439235012211 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 439235012212 ABC-ATPase subunit interface; other site 439235012213 dimer interface [polypeptide binding]; other site 439235012214 putative PBP binding regions; other site 439235012215 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 439235012216 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 439235012217 intersubunit interface [polypeptide binding]; other site 439235012218 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 439235012219 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 439235012220 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 439235012221 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 439235012222 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 439235012223 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 439235012224 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 439235012225 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 439235012226 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 439235012227 binding surface 439235012228 TPR motif; other site 439235012229 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 439235012230 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 439235012231 ABC-ATPase subunit interface; other site 439235012232 dimer interface [polypeptide binding]; other site 439235012233 putative PBP binding regions; other site 439235012234 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 439235012235 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 439235012236 intersubunit interface [polypeptide binding]; other site 439235012237 magnesium chelatase ATPase subunit I; Region: BchI-ChlI; TIGR02030 439235012238 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 439235012239 Walker A motif; other site 439235012240 ATP binding site [chemical binding]; other site 439235012241 Walker B motif; other site 439235012242 arginine finger; other site 439235012243 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 439235012244 metal ion-dependent adhesion site (MIDAS); other site 439235012245 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 439235012246 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 439235012247 Walker A motif; other site 439235012248 ATP binding site [chemical binding]; other site 439235012249 Walker B motif; other site 439235012250 arginine finger; other site 439235012251 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 439235012252 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235012253 Walker A/P-loop; other site 439235012254 ATP binding site [chemical binding]; other site 439235012255 Q-loop/lid; other site 439235012256 ABC transporter signature motif; other site 439235012257 Walker B; other site 439235012258 D-loop; other site 439235012259 H-loop/switch region; other site 439235012260 ABC-2 type transporter; Region: ABC2_membrane; cl17235 439235012261 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 439235012262 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 439235012263 Nucleoside recognition; Region: Gate; pfam07670 439235012264 Domain of unknown function (DUF3842); Region: DUF3842; pfam12953 439235012265 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 439235012266 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 439235012267 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 439235012268 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 439235012269 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 439235012270 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 439235012271 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 439235012272 Ion channel; Region: Ion_trans_2; pfam07885 439235012273 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_2; cd08822 439235012274 putative active site [active] 439235012275 putative substrate binding site [chemical binding]; other site 439235012276 putative cosubstrate binding site; other site 439235012277 catalytic site [active] 439235012278 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235012279 ABC transporter signature motif; other site 439235012280 Walker B; other site 439235012281 D-loop; other site 439235012282 H-loop/switch region; other site 439235012283 Putative phage tail protein; Region: Phage-tail_3; pfam13550 439235012284 tape measure domain; Region: tape_meas_nterm; TIGR02675 439235012285 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 439235012286 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 439235012287 Protein of unknown function (DUF935); Region: DUF935; pfam06074 439235012288 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 439235012289 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 439235012290 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 439235012291 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 439235012292 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 439235012293 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 439235012294 amidase catalytic site [active] 439235012295 Zn binding residues [ion binding]; other site 439235012296 substrate binding site [chemical binding]; other site 439235012297 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 439235012298 CRP/FNR family transcriptional regulator; Provisional; Region: PRK13918 439235012299 ligand binding site [chemical binding]; other site 439235012300 flexible hinge region; other site 439235012301 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 439235012302 putative switch regulator; other site 439235012303 non-specific DNA interactions [nucleotide binding]; other site 439235012304 DNA binding site [nucleotide binding] 439235012305 sequence specific DNA binding site [nucleotide binding]; other site 439235012306 putative cAMP binding site [chemical binding]; other site 439235012307 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 439235012308 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 439235012309 FOG: CBS domain [General function prediction only]; Region: COG0517 439235012310 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 439235012311 HPP family; Region: HPP; pfam04982 439235012312 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 439235012313 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 439235012314 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 439235012315 hybrid cluster protein; Provisional; Region: PRK05290 439235012316 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 439235012317 ACS interaction site; other site 439235012318 CODH interaction site; other site 439235012319 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 439235012320 ACS interaction site; other site 439235012321 CODH interaction site; other site 439235012322 metal cluster binding site [ion binding]; other site 439235012323 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 439235012324 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 439235012325 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 439235012326 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 439235012327 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; pfam07352 439235012328 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 439235012329 non-specific DNA binding site [nucleotide binding]; other site 439235012330 salt bridge; other site 439235012331 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 439235012332 sequence-specific DNA binding site [nucleotide binding]; other site 439235012333 Mu B transposition protein, C terminal; Region: Phage-MuB_C; pfam09077 439235012334 Mu DNA binding, I gamma subdomain; Region: HTH_Tnp_Mu_2; pfam09039 439235012335 Bacteriophage Mu transposase; Region: DDE_2; pfam02914 439235012336 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 439235012337 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 439235012338 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 439235012339 non-specific DNA binding site [nucleotide binding]; other site 439235012340 salt bridge; other site 439235012341 Predicted transcriptional regulator [Transcription]; Region: COG2932 439235012342 sequence-specific DNA binding site [nucleotide binding]; other site 439235012343 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 439235012344 Catalytic site [active] 439235012345 Homeodomain-like domain; Region: HTH_23; cl17451 439235012346 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 439235012347 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235012348 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 439235012349 dimer interface [polypeptide binding]; other site 439235012350 phosphorylation site [posttranslational modification] 439235012351 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 439235012352 ATP binding site [chemical binding]; other site 439235012353 Mg2+ binding site [ion binding]; other site 439235012354 G-X-G motif; other site 439235012355 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235012356 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 439235012357 active site 439235012358 phosphorylation site [posttranslational modification] 439235012359 intermolecular recognition site; other site 439235012360 dimerization interface [polypeptide binding]; other site 439235012361 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 439235012362 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 439235012363 NAD(P) binding site [chemical binding]; other site 439235012364 catalytic residues [active] 439235012365 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 439235012366 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 439235012367 active site 439235012368 metal binding site [ion binding]; metal-binding site 439235012369 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 439235012370 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 439235012371 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 439235012372 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 439235012373 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235012374 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 439235012375 active site 439235012376 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 439235012377 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 439235012378 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 439235012379 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 439235012380 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 439235012381 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 439235012382 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 439235012383 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 439235012384 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 439235012385 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 439235012386 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 439235012387 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 439235012388 Catalytic domain of Protein Kinases; Region: PKc; cd00180 439235012389 active site 439235012390 ATP binding site [chemical binding]; other site 439235012391 substrate binding site [chemical binding]; other site 439235012392 activation loop (A-loop); other site 439235012393 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 439235012394 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 439235012395 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 439235012396 active site 439235012397 ATP binding site [chemical binding]; other site 439235012398 substrate binding site [chemical binding]; other site 439235012399 activation loop (A-loop); other site 439235012400 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 439235012401 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 439235012402 FeS/SAM binding site; other site 439235012403 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 439235012404 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 439235012405 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 439235012406 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 439235012407 TPR motif; other site 439235012408 binding surface 439235012409 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 439235012410 TPR motif; other site 439235012411 binding surface 439235012412 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 439235012413 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 439235012414 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 439235012415 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 439235012416 putative substrate translocation pore; other site 439235012417 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 439235012418 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 439235012419 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 439235012420 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 439235012421 active site 439235012422 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235012423 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 439235012424 dimer interface [polypeptide binding]; other site 439235012425 phosphorylation site [posttranslational modification] 439235012426 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 439235012427 ATP binding site [chemical binding]; other site 439235012428 Mg2+ binding site [ion binding]; other site 439235012429 G-X-G motif; other site 439235012430 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 439235012431 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 439235012432 active site 439235012433 phosphorylation site [posttranslational modification] 439235012434 intermolecular recognition site; other site 439235012435 dimerization interface [polypeptide binding]; other site 439235012436 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 439235012437 DNA binding site [nucleotide binding] 439235012438 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; cl00047 439235012439 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 439235012440 ligand binding site [chemical binding]; other site 439235012441 flexible hinge region; other site 439235012442 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 439235012443 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 439235012444 Walker A motif; other site 439235012445 ATP binding site [chemical binding]; other site 439235012446 Walker B motif; other site 439235012447 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 439235012448 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 439235012449 Walker A motif; other site 439235012450 ATP binding site [chemical binding]; other site 439235012451 Walker B motif; other site 439235012452 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 439235012453 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 439235012454 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 439235012455 nucleotide binding site [chemical binding]; other site 439235012456 NEF interaction site [polypeptide binding]; other site 439235012457 SBD interface [polypeptide binding]; other site 439235012458 GrpE; Region: GrpE; pfam01025 439235012459 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 439235012460 dimer interface [polypeptide binding]; other site 439235012461 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 439235012462 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 439235012463 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 439235012464 protein binding site [polypeptide binding]; other site 439235012465 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 439235012466 Domain of unknown function DUF21; Region: DUF21; pfam01595 439235012467 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 439235012468 Transporter associated domain; Region: CorC_HlyC; smart01091 439235012469 putative acyltransferase; Provisional; Region: PRK05790 439235012470 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 439235012471 dimer interface [polypeptide binding]; other site 439235012472 active site 439235012473 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 439235012474 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 439235012475 G1 box; other site 439235012476 putative GEF interaction site [polypeptide binding]; other site 439235012477 GTP/Mg2+ binding site [chemical binding]; other site 439235012478 Switch I region; other site 439235012479 G2 box; other site 439235012480 G3 box; other site 439235012481 Switch II region; other site 439235012482 G4 box; other site 439235012483 G5 box; other site 439235012484 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 439235012485 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 439235012486 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 439235012487 active site 439235012488 HIGH motif; other site 439235012489 dimer interface [polypeptide binding]; other site 439235012490 KMSKS motif; other site 439235012491 phosphodiesterase; Provisional; Region: PRK12704 439235012492 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235012493 Zn2+ binding site [ion binding]; other site 439235012494 Mg2+ binding site [ion binding]; other site 439235012495 Cell division protein ZapA; Region: ZapA; pfam05164 439235012496 Protein of unknown function (DUF904); Region: DUF904; pfam06005 439235012497 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 439235012498 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 439235012499 gamma subunit interface [polypeptide binding]; other site 439235012500 epsilon subunit interface [polypeptide binding]; other site 439235012501 LBP interface [polypeptide binding]; other site 439235012502 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 439235012503 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 439235012504 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 439235012505 alpha subunit interaction interface [polypeptide binding]; other site 439235012506 Walker A motif; other site 439235012507 ATP binding site [chemical binding]; other site 439235012508 Walker B motif; other site 439235012509 inhibitor binding site; inhibition site 439235012510 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 439235012511 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 439235012512 core domain interface [polypeptide binding]; other site 439235012513 delta subunit interface [polypeptide binding]; other site 439235012514 epsilon subunit interface [polypeptide binding]; other site 439235012515 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 439235012516 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 439235012517 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 439235012518 beta subunit interaction interface [polypeptide binding]; other site 439235012519 Walker A motif; other site 439235012520 ATP binding site [chemical binding]; other site 439235012521 Walker B motif; other site 439235012522 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 439235012523 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 439235012524 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 439235012525 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 439235012526 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 439235012527 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 439235012528 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 439235012529 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 439235012530 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 439235012531 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 439235012532 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 439235012533 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 439235012534 rod shape-determining protein MreC; Provisional; Region: PRK13922 439235012535 rod shape-determining protein MreC; Region: MreC; pfam04085 439235012536 rod shape-determining protein MreB; Provisional; Region: PRK13927 439235012537 MreB and similar proteins; Region: MreB_like; cd10225 439235012538 nucleotide binding site [chemical binding]; other site 439235012539 Mg binding site [ion binding]; other site 439235012540 putative protofilament interaction site [polypeptide binding]; other site 439235012541 RodZ interaction site [polypeptide binding]; other site 439235012542 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 439235012543 RNB domain; Region: RNB; pfam00773 439235012544 Formyltetrahydrofolate synthetase [Nucleotide transport and metabolism]; Region: MIS1; COG2759 439235012545 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 439235012546 Potassium binding sites [ion binding]; other site 439235012547 Cesium cation binding sites [ion binding]; other site 439235012548 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 439235012549 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235012550 acyl-activating enzyme (AAE) consensus motif; other site 439235012551 AMP binding site [chemical binding]; other site 439235012552 active site 439235012553 CoA binding site [chemical binding]; other site 439235012554 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 439235012555 Response regulator receiver domain; Region: Response_reg; pfam00072 439235012556 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 439235012557 active site 439235012558 phosphorylation site [posttranslational modification] 439235012559 intermolecular recognition site; other site 439235012560 dimerization interface [polypeptide binding]; other site 439235012561 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 439235012562 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 439235012563 putative active site [active] 439235012564 heme pocket [chemical binding]; other site 439235012565 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 439235012566 Walker A motif; other site 439235012567 ATP binding site [chemical binding]; other site 439235012568 Walker B motif; other site 439235012569 arginine finger; other site 439235012570 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235012571 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 439235012572 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 439235012573 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 439235012574 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235012575 Walker A/P-loop; other site 439235012576 ATP binding site [chemical binding]; other site 439235012577 Q-loop/lid; other site 439235012578 ABC transporter signature motif; other site 439235012579 Walker B; other site 439235012580 D-loop; other site 439235012581 H-loop/switch region; other site 439235012582 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 439235012583 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 439235012584 dimer interface [polypeptide binding]; other site 439235012585 conserved gate region; other site 439235012586 putative PBP binding loops; other site 439235012587 ABC-ATPase subunit interface; other site 439235012588 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 439235012589 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 439235012590 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 439235012591 non-specific DNA binding site [nucleotide binding]; other site 439235012592 salt bridge; other site 439235012593 sequence-specific DNA binding site [nucleotide binding]; other site 439235012594 PBP superfamily domain; Region: PBP_like; pfam12727 439235012595 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 439235012596 Colicin V production protein; Region: Colicin_V; pfam02674 439235012597 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 439235012598 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 439235012599 homodimer interface [polypeptide binding]; other site 439235012600 metal binding site [ion binding]; metal-binding site 439235012601 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 439235012602 homodimer interface [polypeptide binding]; other site 439235012603 active site 439235012604 putative chemical substrate binding site [chemical binding]; other site 439235012605 metal binding site [ion binding]; metal-binding site 439235012606 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 439235012607 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 439235012608 putative active site [active] 439235012609 oxyanion strand; other site 439235012610 catalytic triad [active] 439235012611 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 439235012612 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 439235012613 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 439235012614 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; cd01292 439235012615 active site 439235012616 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 439235012617 Na binding site [ion binding]; other site 439235012618 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235012619 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 439235012620 putative active site [active] 439235012621 heme pocket [chemical binding]; other site 439235012622 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 439235012623 dimer interface [polypeptide binding]; other site 439235012624 phosphorylation site [posttranslational modification] 439235012625 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 439235012626 ATP binding site [chemical binding]; other site 439235012627 Mg2+ binding site [ion binding]; other site 439235012628 G-X-G motif; other site 439235012629 Cupin domain; Region: Cupin_2; pfam07883 439235012630 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 439235012631 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 439235012632 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 439235012633 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 439235012634 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 439235012635 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 439235012636 substrate binding site [chemical binding]; other site 439235012637 oxyanion hole (OAH) forming residues; other site 439235012638 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 439235012639 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 439235012640 dimer interface [polypeptide binding]; other site 439235012641 active site 439235012642 PAS domain S-box; Region: sensory_box; TIGR00229 439235012643 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235012644 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 439235012645 putative active site [active] 439235012646 heme pocket [chemical binding]; other site 439235012647 PAS fold; Region: PAS_4; pfam08448 439235012648 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 439235012649 putative active site [active] 439235012650 heme pocket [chemical binding]; other site 439235012651 PAS domain S-box; Region: sensory_box; TIGR00229 439235012652 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 439235012653 putative active site [active] 439235012654 heme pocket [chemical binding]; other site 439235012655 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 439235012656 PAS fold; Region: PAS_3; pfam08447 439235012657 putative active site [active] 439235012658 heme pocket [chemical binding]; other site 439235012659 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 439235012660 dimer interface [polypeptide binding]; other site 439235012661 phosphorylation site [posttranslational modification] 439235012662 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 439235012663 ATP binding site [chemical binding]; other site 439235012664 Mg2+ binding site [ion binding]; other site 439235012665 G-X-G motif; other site 439235012666 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235012667 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 439235012668 active site 439235012669 phosphorylation site [posttranslational modification] 439235012670 intermolecular recognition site; other site 439235012671 dimerization interface [polypeptide binding]; other site 439235012672 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 439235012673 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439235012674 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 439235012675 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 439235012676 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 439235012677 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 439235012678 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439235012679 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 439235012680 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 439235012681 MarR family; Region: MarR; pfam01047 439235012682 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 439235012683 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 439235012684 catalytic triad [active] 439235012685 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439235012686 Coenzyme A binding pocket [chemical binding]; other site 439235012687 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 439235012688 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 439235012689 putative ligand binding site [chemical binding]; other site 439235012690 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 439235012691 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 439235012692 TM-ABC transporter signature motif; other site 439235012693 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439235012694 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 439235012695 TM-ABC transporter signature motif; other site 439235012696 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 439235012697 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 439235012698 Walker A/P-loop; other site 439235012699 ATP binding site [chemical binding]; other site 439235012700 Q-loop/lid; other site 439235012701 ABC transporter signature motif; other site 439235012702 Walker B; other site 439235012703 D-loop; other site 439235012704 H-loop/switch region; other site 439235012705 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 439235012706 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 439235012707 Walker A/P-loop; other site 439235012708 ATP binding site [chemical binding]; other site 439235012709 Q-loop/lid; other site 439235012710 ABC transporter signature motif; other site 439235012711 Walker B; other site 439235012712 D-loop; other site 439235012713 H-loop/switch region; other site 439235012714 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 439235012715 Uncharacterized conserved protein [Function unknown]; Region: COG2128 439235012716 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 439235012717 Predicted transcriptional regulators [Transcription]; Region: COG1733 439235012718 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 439235012719 dimerization interface [polypeptide binding]; other site 439235012720 putative DNA binding site [nucleotide binding]; other site 439235012721 putative Zn2+ binding site [ion binding]; other site 439235012722 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 439235012723 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439235012724 Predicted permeases [General function prediction only]; Region: COG0701 439235012725 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 439235012726 dimerization interface [polypeptide binding]; other site 439235012727 putative DNA binding site [nucleotide binding]; other site 439235012728 putative Zn2+ binding site [ion binding]; other site 439235012729 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 439235012730 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 439235012731 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 439235012732 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 439235012733 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 439235012734 putative dimer interface [polypeptide binding]; other site 439235012735 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 439235012736 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 439235012737 putative dimer interface [polypeptide binding]; other site 439235012738 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 439235012739 S-adenosylmethionine binding site [chemical binding]; other site 439235012740 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 439235012741 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 439235012742 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 439235012743 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 439235012744 active site 439235012745 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 439235012746 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 439235012747 glycogen binding site [chemical binding]; other site 439235012748 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 439235012749 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 439235012750 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 439235012751 DNA binding residues [nucleotide binding] 439235012752 CHASE2 domain; Region: CHASE2; pfam05226 439235012753 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 439235012754 cyclase homology domain; Region: CHD; cd07302 439235012755 nucleotidyl binding site; other site 439235012756 metal binding site [ion binding]; metal-binding site 439235012757 dimer interface [polypeptide binding]; other site 439235012758 TPR repeat; Region: TPR_11; pfam13414 439235012759 Tetratricopeptide repeat; Region: TPR_2; pfam07719 439235012760 LPP20 lipoprotein; Region: LPP20; pfam02169 439235012761 TPR repeat; Region: TPR_11; pfam13414 439235012762 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 439235012763 TPR motif; other site 439235012764 binding surface 439235012765 S-layer homology domain; Region: SLH; pfam00395 439235012766 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 439235012767 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 439235012768 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 439235012769 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 439235012770 active site 439235012771 motif I; other site 439235012772 motif II; other site 439235012773 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 439235012774 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 439235012775 binding surface 439235012776 TPR motif; other site 439235012777 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 439235012778 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 439235012779 putative ligand binding site [chemical binding]; other site 439235012780 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 439235012781 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 439235012782 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 439235012783 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 439235012784 PAS domain; Region: PAS_9; pfam13426 439235012785 putative active site [active] 439235012786 heme pocket [chemical binding]; other site 439235012787 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439235012788 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439235012789 metal binding site [ion binding]; metal-binding site 439235012790 active site 439235012791 I-site; other site 439235012792 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 439235012793 putative deacylase active site [active] 439235012794 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 439235012795 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 439235012796 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 439235012797 protein binding site [polypeptide binding]; other site 439235012798 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 439235012799 protein binding site [polypeptide binding]; other site 439235012800 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 439235012801 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 439235012802 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 439235012803 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 439235012804 NADH(P)-binding; Region: NAD_binding_10; pfam13460 439235012805 NAD binding site [chemical binding]; other site 439235012806 active site 439235012807 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 439235012808 LytB protein; Region: LYTB; pfam02401 439235012809 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 439235012810 UbiA prenyltransferase family; Region: UbiA; pfam01040 439235012811 Predicted RNA-binding protein; Region: RNA_bind_2; pfam10133 439235012812 Domain of unknown function (DUF3842); Region: DUF3842; pfam12953 439235012813 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 439235012814 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 439235012815 non-specific DNA binding site [nucleotide binding]; other site 439235012816 salt bridge; other site 439235012817 sequence-specific DNA binding site [nucleotide binding]; other site 439235012818 Domain of unknown function (DUF955); Region: DUF955; cl01076 439235012819 YacP-like NYN domain; Region: NYN_YacP; cl01491 439235012820 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 439235012821 ParB-like nuclease domain; Region: ParBc; pfam02195 439235012822 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 439235012823 salt bridge; other site 439235012824 non-specific DNA binding site [nucleotide binding]; other site 439235012825 sequence-specific DNA binding site [nucleotide binding]; other site 439235012826 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 439235012827 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 439235012828 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 439235012829 Magnesium ion binding site [ion binding]; other site 439235012830 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 439235012831 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 439235012832 Walker A/P-loop; other site 439235012833 ATP binding site [chemical binding]; other site 439235012834 Q-loop/lid; other site 439235012835 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 439235012836 ABC transporter signature motif; other site 439235012837 Walker B; other site 439235012838 D-loop; other site 439235012839 H-loop/switch region; other site 439235012840 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 439235012841 transcription factor ssl1; Region: ssl1; TIGR00622 439235012842 acyl-CoA synthetase; Validated; Region: PRK08316 439235012843 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235012844 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 439235012845 acyl-activating enzyme (AAE) consensus motif; other site 439235012846 putative AMP binding site [chemical binding]; other site 439235012847 putative active site [active] 439235012848 putative CoA binding site [chemical binding]; other site 439235012849 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 439235012850 active site 439235012851 oxyanion hole [active] 439235012852 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 439235012853 AAA domain; Region: AAA_26; pfam13500 439235012854 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 439235012855 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 439235012856 HlyD family secretion protein; Region: HlyD_3; pfam13437 439235012857 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 439235012858 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 439235012859 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 439235012860 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 439235012861 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 439235012862 Cysteine-rich domain; Region: CCG; pfam02754 439235012863 biotin synthase; Region: bioB; TIGR00433 439235012864 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 439235012865 FeS/SAM binding site; other site 439235012866 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 439235012867 NMT1/THI5 like; Region: NMT1; pfam09084 439235012868 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 439235012869 membrane-bound complex binding site; other site 439235012870 hinge residues; other site 439235012871 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 439235012872 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 439235012873 dimer interface [polypeptide binding]; other site 439235012874 conserved gate region; other site 439235012875 putative PBP binding loops; other site 439235012876 ABC-ATPase subunit interface; other site 439235012877 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 439235012878 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 439235012879 Walker A/P-loop; other site 439235012880 ATP binding site [chemical binding]; other site 439235012881 Q-loop/lid; other site 439235012882 ABC transporter signature motif; other site 439235012883 Walker B; other site 439235012884 D-loop; other site 439235012885 H-loop/switch region; other site 439235012886 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 439235012887 Zn binding site [ion binding]; other site 439235012888 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 439235012889 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439235012890 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 439235012891 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439235012892 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 439235012893 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439235012894 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 439235012895 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 439235012896 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 439235012897 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 439235012898 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 439235012899 putative nucleic acid binding site [nucleotide binding]; other site 439235012900 Predicted amidohydrolase [General function prediction only]; Region: COG0388 439235012901 Transposase [DNA replication, recombination, and repair]; Region: COG5421 439235012902 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 439235012903 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 439235012904 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 439235012905 Walker A/P-loop; other site 439235012906 ATP binding site [chemical binding]; other site 439235012907 Q-loop/lid; other site 439235012908 ABC transporter signature motif; other site 439235012909 Walker B; other site 439235012910 D-loop; other site 439235012911 H-loop/switch region; other site 439235012912 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 439235012913 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 439235012914 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235012915 Walker A/P-loop; other site 439235012916 ATP binding site [chemical binding]; other site 439235012917 Q-loop/lid; other site 439235012918 ABC transporter signature motif; other site 439235012919 Walker B; other site 439235012920 D-loop; other site 439235012921 H-loop/switch region; other site 439235012922 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 439235012923 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 439235012924 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 439235012925 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 439235012926 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 439235012927 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 439235012928 TPR repeat; Region: TPR_11; pfam13414 439235012929 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 439235012930 binding surface 439235012931 TPR motif; other site 439235012932 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235012933 short chain dehydrogenase; Provisional; Region: PRK07035 439235012934 classical (c) SDRs; Region: SDR_c; cd05233 439235012935 NAD(P) binding site [chemical binding]; other site 439235012936 active site 439235012937 Response regulator receiver domain; Region: Response_reg; pfam00072 439235012938 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 439235012939 active site 439235012940 phosphorylation site [posttranslational modification] 439235012941 intermolecular recognition site; other site 439235012942 dimerization interface [polypeptide binding]; other site 439235012943 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439235012944 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439235012945 metal binding site [ion binding]; metal-binding site 439235012946 active site 439235012947 I-site; other site 439235012948 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 439235012949 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 439235012950 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 439235012951 active site 439235012952 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 439235012953 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 439235012954 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 439235012955 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 439235012956 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235012957 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235012958 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235012959 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 439235012960 active site 439235012961 phosphorylation site [posttranslational modification] 439235012962 intermolecular recognition site; other site 439235012963 dimerization interface [polypeptide binding]; other site 439235012964 Response regulator receiver domain; Region: Response_reg; pfam00072 439235012965 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 439235012966 active site 439235012967 phosphorylation site [posttranslational modification] 439235012968 intermolecular recognition site; other site 439235012969 dimerization interface [polypeptide binding]; other site 439235012970 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439235012971 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439235012972 metal binding site [ion binding]; metal-binding site 439235012973 active site 439235012974 I-site; other site 439235012975 Putative Fe-S cluster; Region: FeS; pfam04060 439235012976 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 439235012977 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 439235012978 Catalytic domain of Protein Kinases; Region: PKc; cd00180 439235012979 active site 439235012980 ATP binding site [chemical binding]; other site 439235012981 substrate binding site [chemical binding]; other site 439235012982 activation loop (A-loop); other site 439235012983 HDOD domain; Region: HDOD; pfam08668 439235012984 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 439235012985 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 439235012986 active site 439235012987 ATP binding site [chemical binding]; other site 439235012988 substrate binding site [chemical binding]; other site 439235012989 activation loop (A-loop); other site 439235012990 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439235012991 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 439235012992 ligand binding site [chemical binding]; other site 439235012993 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 439235012994 DNA methylase; Region: N6_N4_Mtase; pfam01555 439235012995 agmatinase; Region: agmatinase; TIGR01230 439235012996 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 439235012997 putative active site [active] 439235012998 Mn binding site [ion binding]; other site 439235012999 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; pfam01862 439235013000 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 439235013001 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 439235013002 substrate binding site [chemical binding]; other site 439235013003 oxyanion hole (OAH) forming residues; other site 439235013004 trimer interface [polypeptide binding]; other site 439235013005 Leucine rich repeat; Region: LRR_8; pfam13855 439235013006 Leucine rich repeat; Region: LRR_8; pfam13855 439235013007 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 439235013008 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 439235013009 G1 box; other site 439235013010 GTP/Mg2+ binding site [chemical binding]; other site 439235013011 G2 box; other site 439235013012 Switch I region; other site 439235013013 G3 box; other site 439235013014 Switch II region; other site 439235013015 G4 box; other site 439235013016 G5 box; other site 439235013017 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 439235013018 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 439235013019 motif 1; other site 439235013020 dimer interface [polypeptide binding]; other site 439235013021 active site 439235013022 motif 2; other site 439235013023 motif 3; other site 439235013024 elongation factor P; Validated; Region: PRK00529 439235013025 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 439235013026 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 439235013027 RNA binding site [nucleotide binding]; other site 439235013028 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 439235013029 RNA binding site [nucleotide binding]; other site 439235013030 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 439235013031 dimer interface [polypeptide binding]; other site 439235013032 FMN binding site [chemical binding]; other site 439235013033 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 439235013034 domain interfaces; other site 439235013035 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 439235013036 active site 439235013037 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 439235013038 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 439235013039 substrate binding site [chemical binding]; other site 439235013040 oxyanion hole (OAH) forming residues; other site 439235013041 trimer interface [polypeptide binding]; other site 439235013042 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235013043 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 439235013044 FAD binding site [chemical binding]; other site 439235013045 homotetramer interface [polypeptide binding]; other site 439235013046 substrate binding pocket [chemical binding]; other site 439235013047 catalytic base [active] 439235013048 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 439235013049 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 439235013050 non-specific DNA binding site [nucleotide binding]; other site 439235013051 salt bridge; other site 439235013052 sequence-specific DNA binding site [nucleotide binding]; other site 439235013053 Cupin domain; Region: Cupin_2; pfam07883 439235013054 TPR repeat; Region: TPR_11; pfam13414 439235013055 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 439235013056 binding surface 439235013057 TPR motif; other site 439235013058 TPR repeat; Region: TPR_11; pfam13414 439235013059 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 439235013060 binding surface 439235013061 TPR motif; other site 439235013062 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 439235013063 TPR motif; other site 439235013064 binding surface 439235013065 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 439235013066 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 439235013067 dimer interface [polypeptide binding]; other site 439235013068 substrate binding site [chemical binding]; other site 439235013069 metal binding site [ion binding]; metal-binding site 439235013070 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 439235013071 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 439235013072 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 439235013073 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 439235013074 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 439235013075 active site 439235013076 catalytic residues [active] 439235013077 metal binding site [ion binding]; metal-binding site 439235013078 homodimer binding site [polypeptide binding]; other site 439235013079 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 439235013080 carboxyltransferase (CT) interaction site; other site 439235013081 biotinylation site [posttranslational modification]; other site 439235013082 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 439235013083 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 439235013084 CoA-ligase; Region: Ligase_CoA; pfam00549 439235013085 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 439235013086 CoA binding domain; Region: CoA_binding; smart00881 439235013087 CoA-ligase; Region: Ligase_CoA; pfam00549 439235013088 DEAD-like helicases superfamily; Region: DEXDc; smart00487 439235013089 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 439235013090 ATP binding site [chemical binding]; other site 439235013091 putative Mg++ binding site [ion binding]; other site 439235013092 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 439235013093 nucleotide binding region [chemical binding]; other site 439235013094 ATP-binding site [chemical binding]; other site 439235013095 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 439235013096 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 439235013097 acyl-activating enzyme (AAE) consensus motif; other site 439235013098 putative AMP binding site [chemical binding]; other site 439235013099 putative active site [active] 439235013100 putative CoA binding site [chemical binding]; other site 439235013101 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439235013102 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 439235013103 ligand binding site [chemical binding]; other site 439235013104 flexible hinge region; other site 439235013105 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 439235013106 active site 439235013107 catalytic residues [active] 439235013108 metal binding site [ion binding]; metal-binding site 439235013109 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 439235013110 enoyl-CoA hydratase; Provisional; Region: PRK07657 439235013111 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 439235013112 substrate binding site [chemical binding]; other site 439235013113 oxyanion hole (OAH) forming residues; other site 439235013114 trimer interface [polypeptide binding]; other site 439235013115 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235013116 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235013117 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 439235013118 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235013119 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235013120 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 439235013121 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 439235013122 active site 439235013123 catalytic residues [active] 439235013124 metal binding site [ion binding]; metal-binding site 439235013125 FOG: CBS domain [General function prediction only]; Region: COG0517 439235013126 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 439235013127 Late embryogenesis abundant protein; Region: LEA_2; cl12118 439235013128 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 439235013129 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 439235013130 Walker A/P-loop; other site 439235013131 ATP binding site [chemical binding]; other site 439235013132 Q-loop/lid; other site 439235013133 ABC transporter signature motif; other site 439235013134 Walker B; other site 439235013135 D-loop; other site 439235013136 H-loop/switch region; other site 439235013137 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 439235013138 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 439235013139 putative ligand binding site [chemical binding]; other site 439235013140 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 439235013141 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 439235013142 TM-ABC transporter signature motif; other site 439235013143 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439235013144 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 439235013145 TM-ABC transporter signature motif; other site 439235013146 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 439235013147 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235013148 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 439235013149 acyl-activating enzyme (AAE) consensus motif; other site 439235013150 acyl-activating enzyme (AAE) consensus motif; other site 439235013151 putative AMP binding site [chemical binding]; other site 439235013152 putative active site [active] 439235013153 putative CoA binding site [chemical binding]; other site 439235013154 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 439235013155 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 439235013156 Walker A/P-loop; other site 439235013157 ATP binding site [chemical binding]; other site 439235013158 Q-loop/lid; other site 439235013159 ABC transporter signature motif; other site 439235013160 Walker B; other site 439235013161 D-loop; other site 439235013162 H-loop/switch region; other site 439235013163 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 439235013164 Beta-lactamase; Region: Beta-lactamase; pfam00144 439235013165 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 439235013166 dimer interface [polypeptide binding]; other site 439235013167 catalytic triad [active] 439235013168 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 439235013169 putative catalytic site [active] 439235013170 putative metal binding site [ion binding]; other site 439235013171 putative phosphate binding site [ion binding]; other site 439235013172 SurA N-terminal domain; Region: SurA_N; pfam09312 439235013173 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 439235013174 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 439235013175 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 439235013176 PilZ domain; Region: PilZ; pfam07238 439235013177 Uncharacterized conserved protein [Function unknown]; Region: COG4717 439235013178 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235013179 Walker A/P-loop; other site 439235013180 ATP binding site [chemical binding]; other site 439235013181 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 439235013182 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 439235013183 active site 439235013184 metal binding site [ion binding]; metal-binding site 439235013185 DNA binding site [nucleotide binding] 439235013186 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 439235013187 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235013188 acyl-activating enzyme (AAE) consensus motif; other site 439235013189 AMP binding site [chemical binding]; other site 439235013190 active site 439235013191 CoA binding site [chemical binding]; other site 439235013192 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 439235013193 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 439235013194 dimer interface [polypeptide binding]; other site 439235013195 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235013196 catalytic residue [active] 439235013197 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 439235013198 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 439235013199 active site 439235013200 HIGH motif; other site 439235013201 nucleotide binding site [chemical binding]; other site 439235013202 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 439235013203 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 439235013204 tRNA binding surface [nucleotide binding]; other site 439235013205 anticodon binding site; other site 439235013206 thymidylate kinase; Validated; Region: tmk; PRK00698 439235013207 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 439235013208 TMP-binding site; other site 439235013209 ATP-binding site [chemical binding]; other site 439235013210 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 439235013211 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 439235013212 generic binding surface II; other site 439235013213 generic binding surface I; other site 439235013214 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235013215 Zn2+ binding site [ion binding]; other site 439235013216 Mg2+ binding site [ion binding]; other site 439235013217 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 439235013218 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 439235013219 Organic solvent tolerance protein; Region: OstA_C; pfam04453 439235013220 CBS domain; Region: CBS; pfam00571 439235013221 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 439235013222 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439235013223 NAD(P) binding site [chemical binding]; other site 439235013224 active site 439235013225 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235013226 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235013227 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235013228 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235013229 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 439235013230 Nitroreductase family; Region: Nitroreductase; pfam00881 439235013231 FMN binding site [chemical binding]; other site 439235013232 dimer interface [polypeptide binding]; other site 439235013233 Transcriptional regulators [Transcription]; Region: FadR; COG2186 439235013234 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439235013235 DNA-binding site [nucleotide binding]; DNA binding site 439235013236 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 439235013237 active site 439235013238 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 439235013239 active site 439235013240 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 439235013241 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235013242 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235013243 acyl-activating enzyme (AAE) consensus motif; other site 439235013244 AMP binding site [chemical binding]; other site 439235013245 active site 439235013246 CoA binding site [chemical binding]; other site 439235013247 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235013248 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235013249 active site 439235013250 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235013251 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 439235013252 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235013253 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 439235013254 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 439235013255 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 439235013256 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 439235013257 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 439235013258 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 439235013259 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 439235013260 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439235013261 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 439235013262 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 439235013263 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 439235013264 Rubrerythrin [Energy production and conversion]; Region: COG1592 439235013265 binuclear metal center [ion binding]; other site 439235013266 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 439235013267 iron binding site [ion binding]; other site 439235013268 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 439235013269 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235013270 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 439235013271 acyl-activating enzyme (AAE) consensus motif; other site 439235013272 acyl-activating enzyme (AAE) consensus motif; other site 439235013273 putative AMP binding site [chemical binding]; other site 439235013274 putative active site [active] 439235013275 putative CoA binding site [chemical binding]; other site 439235013276 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 439235013277 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 439235013278 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 439235013279 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 439235013280 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 439235013281 AAA domain; Region: AAA_33; pfam13671 439235013282 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 439235013283 Uncharacterized conserved protein [Function unknown]; Region: COG3287 439235013284 FIST N domain; Region: FIST; pfam08495 439235013285 FIST C domain; Region: FIST_C; pfam10442 439235013286 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 439235013287 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 439235013288 FMN binding site [chemical binding]; other site 439235013289 substrate binding site [chemical binding]; other site 439235013290 putative catalytic residue [active] 439235013291 Putative exonuclease, RdgC; Region: RdgC; cl01122 439235013292 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 439235013293 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 439235013294 FeS/SAM binding site; other site 439235013295 FOG: CBS domain [General function prediction only]; Region: COG0517 439235013296 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 439235013297 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 439235013298 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 439235013299 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 439235013300 FeS/SAM binding site; other site 439235013301 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 439235013302 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 439235013303 dimer interface [polypeptide binding]; other site 439235013304 active site 439235013305 Schiff base residues; other site 439235013306 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 439235013307 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 439235013308 FeS/SAM binding site; other site 439235013309 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 439235013310 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 439235013311 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 439235013312 Walker A motif; other site 439235013313 ATP binding site [chemical binding]; other site 439235013314 Walker B motif; other site 439235013315 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 439235013316 TPR repeat; Region: TPR_11; pfam13414 439235013317 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 439235013318 binding surface 439235013319 TPR motif; other site 439235013320 O-Antigen ligase; Region: Wzy_C; cl04850 439235013321 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 439235013322 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 439235013323 TPR motif; other site 439235013324 binding surface 439235013325 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 439235013326 TPR motif; other site 439235013327 binding surface 439235013328 putative glycosyl transferase; Provisional; Region: PRK10307 439235013329 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 439235013330 putative acyltransferase; Provisional; Region: PRK05790 439235013331 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 439235013332 dimer interface [polypeptide binding]; other site 439235013333 active site 439235013334 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 439235013335 CoenzymeA binding site [chemical binding]; other site 439235013336 subunit interaction site [polypeptide binding]; other site 439235013337 PHB binding site; other site 439235013338 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 439235013339 MarR family; Region: MarR_2; pfam12802 439235013340 Protein of unknown function (DUF3089); Region: DUF3089; pfam11288 439235013341 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 439235013342 Transposase; Region: DEDD_Tnp_IS110; pfam01548 439235013343 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 439235013344 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 439235013345 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439235013346 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 439235013347 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 439235013348 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 439235013349 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 439235013350 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 439235013351 Ferredoxin [Energy production and conversion]; Region: COG1146 439235013352 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 439235013353 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 439235013354 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 439235013355 putative NAD(P) binding site [chemical binding]; other site 439235013356 active site 439235013357 putative substrate binding site [chemical binding]; other site 439235013358 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 439235013359 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235013360 acyl-activating enzyme (AAE) consensus motif; other site 439235013361 AMP binding site [chemical binding]; other site 439235013362 active site 439235013363 CoA binding site [chemical binding]; other site 439235013364 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 439235013365 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 439235013366 active site 439235013367 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 439235013368 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 439235013369 DNA binding residues [nucleotide binding] 439235013370 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235013371 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235013372 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 439235013373 4Fe-4S binding domain; Region: Fer4_6; pfam12837 439235013374 Nitroreductase family; Region: Nitroreductase; pfam00881 439235013375 FMN binding site [chemical binding]; other site 439235013376 dimer interface [polypeptide binding]; other site 439235013377 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439235013378 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 439235013379 ligand binding site [chemical binding]; other site 439235013380 flexible hinge region; other site 439235013381 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 439235013382 MarR family; Region: MarR; pfam01047 439235013383 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 439235013384 Transposase [DNA replication, recombination, and repair]; Region: COG5421 439235013385 SnoaL-like domain; Region: SnoaL_3; pfam13474 439235013386 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 439235013387 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 439235013388 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 439235013389 putative active site [active] 439235013390 putative catalytic site [active] 439235013391 Predicted hydrocarbon binding protein (contains V4R domain) [General function prediction only]; Region: COG1719 439235013392 V4R domain; Region: V4R; pfam02830 439235013393 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 439235013394 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 439235013395 Walker A motif; other site 439235013396 ATP binding site [chemical binding]; other site 439235013397 Walker B motif; other site 439235013398 arginine finger; other site 439235013399 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235013400 fatty acyl-CoA reductase; Region: PLN02996 439235013401 fatty acyl CoA reductases (FARs), extended (e) SDRs; Region: FAR-N_SDR_e; cd05236 439235013402 putative NAD(P) binding site [chemical binding]; other site 439235013403 active site 439235013404 putative substrate binding site [chemical binding]; other site 439235013405 C-terminal domain of fatty acyl CoA reductases; Region: FAR_C; cd09071 439235013406 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 439235013407 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235013408 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 439235013409 acyl-activating enzyme (AAE) consensus motif; other site 439235013410 putative AMP binding site [chemical binding]; other site 439235013411 putative active site [active] 439235013412 putative CoA binding site [chemical binding]; other site 439235013413 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 439235013414 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235013415 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 439235013416 Walker A/P-loop; other site 439235013417 ATP binding site [chemical binding]; other site 439235013418 ATP binding site [chemical binding]; other site 439235013419 putative Mg++ binding site [ion binding]; other site 439235013420 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 439235013421 nucleotide binding region [chemical binding]; other site 439235013422 ATP-binding site [chemical binding]; other site 439235013423 Helicase associated domain (HA2); Region: HA2; pfam04408 439235013424 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 439235013425 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 439235013426 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 439235013427 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 439235013428 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 439235013429 N-acetyl-D-glucosamine binding site [chemical binding]; other site 439235013430 catalytic residue [active] 439235013431 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 439235013432 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439235013433 ligand binding site [chemical binding]; other site 439235013434 PilZ domain; Region: PilZ; cl01260 439235013435 PilZ domain; Region: PilZ; pfam07238 439235013436 TPR repeat; Region: TPR_11; pfam13414 439235013437 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 439235013438 binding surface 439235013439 TPR motif; other site 439235013440 TPR repeat; Region: TPR_11; pfam13414 439235013441 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 439235013442 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 439235013443 putative acyl-acceptor binding pocket; other site 439235013444 Quinolinate synthetase A protein; Region: NadA; pfam02445 439235013445 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 439235013446 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 439235013447 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 439235013448 carboxyltransferase (CT) interaction site; other site 439235013449 biotinylation site [posttranslational modification]; other site 439235013450 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439235013451 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439235013452 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 439235013453 dimerization interface [polypeptide binding]; other site 439235013454 OsmC-like protein; Region: OsmC; cl00767 439235013455 OsmC-like protein; Region: OsmC; pfam02566 439235013456 putative membrane protein, TIGR04086 family; Region: TIGR04086_membr 439235013457 PAS domain S-box; Region: sensory_box; TIGR00229 439235013458 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 439235013459 putative active site [active] 439235013460 heme pocket [chemical binding]; other site 439235013461 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235013462 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 439235013463 dimer interface [polypeptide binding]; other site 439235013464 phosphorylation site [posttranslational modification] 439235013465 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 439235013466 ATP binding site [chemical binding]; other site 439235013467 Mg2+ binding site [ion binding]; other site 439235013468 G-X-G motif; other site 439235013469 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235013470 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 439235013471 active site 439235013472 phosphorylation site [posttranslational modification] 439235013473 intermolecular recognition site; other site 439235013474 dimerization interface [polypeptide binding]; other site 439235013475 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 439235013476 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 439235013477 homodimer interface [polypeptide binding]; other site 439235013478 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 439235013479 active site pocket [active] 439235013480 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 439235013481 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 439235013482 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 439235013483 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 439235013484 Right handed beta helix region; Region: Beta_helix; pfam13229 439235013485 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 439235013486 C-terminal peptidase (prc); Region: prc; TIGR00225 439235013487 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 439235013488 protein binding site [polypeptide binding]; other site 439235013489 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 439235013490 Catalytic dyad [active] 439235013491 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 439235013492 propionate/acetate kinase; Provisional; Region: PRK12379 439235013493 Peptidase C10 family; Region: Peptidase_C10; pfam01640 439235013494 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 439235013495 active site 2 [active] 439235013496 active site 1 [active] 439235013497 (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. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 439235013498 active site 439235013499 catalytic site [active] 439235013500 acetyl-CoA acetyltransferase; Validated; Region: PRK06157 439235013501 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 439235013502 active site 439235013503 3-hydroxy-3-methylglutaryl CoA synthase [Lipid metabolism]; Region: PksG; COG3425 439235013504 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 439235013505 dimer interface [polypeptide binding]; other site 439235013506 active site 439235013507 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 439235013508 DUF35 OB-fold domain; Region: DUF35; pfam01796 439235013509 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 439235013510 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439235013511 NAD(P) binding site [chemical binding]; other site 439235013512 active site 439235013513 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235013514 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235013515 active site 439235013516 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235013517 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235013518 active site 439235013519 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 439235013520 TPR motif; other site 439235013521 binding surface 439235013522 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235013523 Nif-specific regulatory protein; Region: nifA; TIGR01817 439235013524 GAF domain; Region: GAF_3; pfam13492 439235013525 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 439235013526 Walker A motif; other site 439235013527 ATP binding site [chemical binding]; other site 439235013528 Walker B motif; other site 439235013529 arginine finger; other site 439235013530 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235013531 Response regulator receiver domain; Region: Response_reg; pfam00072 439235013532 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 439235013533 active site 439235013534 phosphorylation site [posttranslational modification] 439235013535 intermolecular recognition site; other site 439235013536 dimerization interface [polypeptide binding]; other site 439235013537 GAF domain; Region: GAF_3; pfam13492 439235013538 GAF domain; Region: GAF_2; pfam13185 439235013539 PAS domain S-box; Region: sensory_box; TIGR00229 439235013540 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 439235013541 putative active site [active] 439235013542 heme pocket [chemical binding]; other site 439235013543 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235013544 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 439235013545 dimer interface [polypeptide binding]; other site 439235013546 phosphorylation site [posttranslational modification] 439235013547 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 439235013548 ATP binding site [chemical binding]; other site 439235013549 Mg2+ binding site [ion binding]; other site 439235013550 G-X-G motif; other site 439235013551 Response regulator receiver domain; Region: Response_reg; pfam00072 439235013552 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 439235013553 active site 439235013554 phosphorylation site [posttranslational modification] 439235013555 intermolecular recognition site; other site 439235013556 dimerization interface [polypeptide binding]; other site 439235013557 Response regulator receiver domain; Region: Response_reg; pfam00072 439235013558 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 439235013559 active site 439235013560 phosphorylation site [posttranslational modification] 439235013561 intermolecular recognition site; other site 439235013562 dimerization interface [polypeptide binding]; other site 439235013563 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 439235013564 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 439235013565 putative active site [active] 439235013566 heme pocket [chemical binding]; other site 439235013567 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 439235013568 dimer interface [polypeptide binding]; other site 439235013569 phosphorylation site [posttranslational modification] 439235013570 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 439235013571 ATP binding site [chemical binding]; other site 439235013572 Mg2+ binding site [ion binding]; other site 439235013573 G-X-G motif; other site 439235013574 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235013575 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 439235013576 active site 439235013577 phosphorylation site [posttranslational modification] 439235013578 intermolecular recognition site; other site 439235013579 dimerization interface [polypeptide binding]; other site 439235013580 Response regulator receiver domain; Region: Response_reg; pfam00072 439235013581 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 439235013582 active site 439235013583 phosphorylation site [posttranslational modification] 439235013584 intermolecular recognition site; other site 439235013585 dimerization interface [polypeptide binding]; other site 439235013586 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 439235013587 putative binding surface; other site 439235013588 active site 439235013589 PAS domain S-box; Region: sensory_box; TIGR00229 439235013590 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 439235013591 putative active site [active] 439235013592 heme pocket [chemical binding]; other site 439235013593 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 439235013594 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 439235013595 putative active site [active] 439235013596 heme pocket [chemical binding]; other site 439235013597 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 439235013598 dimer interface [polypeptide binding]; other site 439235013599 phosphorylation site [posttranslational modification] 439235013600 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 439235013601 ATP binding site [chemical binding]; other site 439235013602 Mg2+ binding site [ion binding]; other site 439235013603 G-X-G motif; other site 439235013604 Response regulator receiver domain; Region: Response_reg; pfam00072 439235013605 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 439235013606 active site 439235013607 phosphorylation site [posttranslational modification] 439235013608 intermolecular recognition site; other site 439235013609 dimerization interface [polypeptide binding]; other site 439235013610 Response regulator receiver domain; Region: Response_reg; pfam00072 439235013611 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 439235013612 active site 439235013613 phosphorylation site [posttranslational modification] 439235013614 intermolecular recognition site; other site 439235013615 dimerization interface [polypeptide binding]; other site 439235013616 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 439235013617 putative binding surface; other site 439235013618 active site 439235013619 Chemotaxis phosphatase CheX; Region: CheX; cl15816 439235013620 Response regulator receiver domain; Region: Response_reg; pfam00072 439235013621 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 439235013622 active site 439235013623 phosphorylation site [posttranslational modification] 439235013624 intermolecular recognition site; other site 439235013625 dimerization interface [polypeptide binding]; other site 439235013626 HDOD domain; Region: HDOD; pfam08668 439235013627 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235013628 Zn2+ binding site [ion binding]; other site 439235013629 Mg2+ binding site [ion binding]; other site 439235013630 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235013631 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 439235013632 active site 439235013633 phosphorylation site [posttranslational modification] 439235013634 intermolecular recognition site; other site 439235013635 dimerization interface [polypeptide binding]; other site 439235013636 CheD chemotactic sensory transduction; Region: CheD; cl00810 439235013637 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 439235013638 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 439235013639 active site 439235013640 phosphorylation site [posttranslational modification] 439235013641 intermolecular recognition site; other site 439235013642 dimerization interface [polypeptide binding]; other site 439235013643 CheB methylesterase; Region: CheB_methylest; pfam01339 439235013644 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 439235013645 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 439235013646 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 439235013647 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 439235013648 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 439235013649 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 439235013650 dimerization interface [polypeptide binding]; other site 439235013651 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 439235013652 dimer interface [polypeptide binding]; other site 439235013653 putative CheW interface [polypeptide binding]; other site 439235013654 Cache domain; Region: Cache_1; pfam02743 439235013655 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 439235013656 dimerization interface [polypeptide binding]; other site 439235013657 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 439235013658 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 439235013659 dimer interface [polypeptide binding]; other site 439235013660 putative CheW interface [polypeptide binding]; other site 439235013661 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 439235013662 putative CheA interaction surface; other site 439235013663 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 439235013664 putative binding surface; other site 439235013665 active site 439235013666 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 439235013667 putative binding surface; other site 439235013668 active site 439235013669 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 439235013670 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 439235013671 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 439235013672 ATP binding site [chemical binding]; other site 439235013673 Mg2+ binding site [ion binding]; other site 439235013674 G-X-G motif; other site 439235013675 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 439235013676 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 439235013677 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 439235013678 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 439235013679 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 439235013680 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 439235013681 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 439235013682 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 439235013683 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 439235013684 Sporulation related domain; Region: SPOR; pfam05036 439235013685 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 439235013686 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 439235013687 dimer interface [polypeptide binding]; other site 439235013688 phosphorylation site [posttranslational modification] 439235013689 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 439235013690 ATP binding site [chemical binding]; other site 439235013691 Mg2+ binding site [ion binding]; other site 439235013692 G-X-G motif; other site 439235013693 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235013694 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 439235013695 active site 439235013696 phosphorylation site [posttranslational modification] 439235013697 intermolecular recognition site; other site 439235013698 dimerization interface [polypeptide binding]; other site 439235013699 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 439235013700 hypothetical protein; Reviewed; Region: PRK09588 439235013701 Archease protein family (MTH1598/TM1083); Region: Archease; pfam01951 439235013702 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 439235013703 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 439235013704 substrate binding pocket [chemical binding]; other site 439235013705 membrane-bound complex binding site; other site 439235013706 hinge residues; other site 439235013707 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 439235013708 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 439235013709 N-acetyl-D-glucosamine binding site [chemical binding]; other site 439235013710 catalytic residue [active] 439235013711 shikimate kinase; Reviewed; Region: aroK; PRK00131 439235013712 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 439235013713 ADP binding site [chemical binding]; other site 439235013714 magnesium binding site [ion binding]; other site 439235013715 putative shikimate binding site; other site 439235013716 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 439235013717 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 439235013718 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 439235013719 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 439235013720 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 439235013721 non-specific DNA binding site [nucleotide binding]; other site 439235013722 salt bridge; other site 439235013723 sequence-specific DNA binding site [nucleotide binding]; other site 439235013724 Domain of unknown function (DUF955); Region: DUF955; pfam06114 439235013725 Proline dehydrogenase; Region: Pro_dh; cl03282 439235013726 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 439235013727 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 439235013728 Glutamate binding site [chemical binding]; other site 439235013729 NAD binding site [chemical binding]; other site 439235013730 catalytic residues [active] 439235013731 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 439235013732 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 439235013733 Walker A/P-loop; other site 439235013734 ATP binding site [chemical binding]; other site 439235013735 Q-loop/lid; other site 439235013736 ABC transporter signature motif; other site 439235013737 Walker B; other site 439235013738 D-loop; other site 439235013739 H-loop/switch region; other site 439235013740 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 439235013741 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 439235013742 Walker A/P-loop; other site 439235013743 ATP binding site [chemical binding]; other site 439235013744 Q-loop/lid; other site 439235013745 ABC transporter signature motif; other site 439235013746 Walker B; other site 439235013747 D-loop; other site 439235013748 H-loop/switch region; other site 439235013749 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 439235013750 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 439235013751 TM-ABC transporter signature motif; other site 439235013752 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439235013753 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 439235013754 TM-ABC transporter signature motif; other site 439235013755 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 439235013756 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 439235013757 dimerization interface [polypeptide binding]; other site 439235013758 ligand binding site [chemical binding]; other site 439235013759 EamA-like transporter family; Region: EamA; pfam00892 439235013760 aconitate hydratase; Validated; Region: PRK07229 439235013761 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 439235013762 substrate binding site [chemical binding]; other site 439235013763 ligand binding site [chemical binding]; other site 439235013764 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 439235013765 substrate binding site [chemical binding]; other site 439235013766 SurA N-terminal domain; Region: SurA_N_3; cl07813 439235013767 periplasmic folding chaperone; Provisional; Region: PRK10788 439235013768 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 439235013769 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 439235013770 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 439235013771 FeS/SAM binding site; other site 439235013772 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 439235013773 putative ligand binding pocket/active site [active] 439235013774 putative metal binding site [ion binding]; other site 439235013775 AMMECR1; Region: AMMECR1; pfam01871 439235013776 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 439235013777 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 439235013778 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439235013779 DNA-binding site [nucleotide binding]; DNA binding site 439235013780 UTRA domain; Region: UTRA; pfam07702 439235013781 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 439235013782 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 439235013783 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 439235013784 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 439235013785 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 439235013786 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235013787 catalytic residue [active] 439235013788 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 439235013789 binding surface 439235013790 TPR repeat; Region: TPR_11; pfam13414 439235013791 TPR motif; other site 439235013792 TPR repeat; Region: TPR_11; pfam13414 439235013793 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 439235013794 PAS domain S-box; Region: sensory_box; TIGR00229 439235013795 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 439235013796 putative active site [active] 439235013797 heme pocket [chemical binding]; other site 439235013798 PAS domain; Region: PAS; smart00091 439235013799 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235013800 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 439235013801 dimer interface [polypeptide binding]; other site 439235013802 phosphorylation site [posttranslational modification] 439235013803 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 439235013804 ATP binding site [chemical binding]; other site 439235013805 Mg2+ binding site [ion binding]; other site 439235013806 G-X-G motif; other site 439235013807 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235013808 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 439235013809 active site 439235013810 phosphorylation site [posttranslational modification] 439235013811 intermolecular recognition site; other site 439235013812 dimerization interface [polypeptide binding]; other site 439235013813 Terminase-like family; Region: Terminase_6; pfam03237 439235013814 Uncharacterized conserved protein [Function unknown]; Region: COG5323 439235013815 large terminase protein; Provisional; Region: 17; PHA02533 439235013816 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 439235013817 Phage Tail Collar Domain; Region: Collar; pfam07484 439235013818 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439235013819 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 439235013820 Coenzyme A binding pocket [chemical binding]; other site 439235013821 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 439235013822 YceG-like family; Region: YceG; pfam02618 439235013823 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 439235013824 dimerization interface [polypeptide binding]; other site 439235013825 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 439235013826 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 439235013827 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 439235013828 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 439235013829 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 439235013830 FMN binding site [chemical binding]; other site 439235013831 dimer interface [polypeptide binding]; other site 439235013832 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 439235013833 dimer interface [polypeptide binding]; other site 439235013834 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 439235013835 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 439235013836 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 439235013837 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 439235013838 P loop; other site 439235013839 Nucleotide binding site [chemical binding]; other site 439235013840 DTAP/Switch II; other site 439235013841 Switch I; other site 439235013842 HDOD domain; Region: HDOD; pfam08668 439235013843 type 2 lantibiotic biosynthesis protein LanM; Region: lanti_2_LanM; TIGR03897 439235013844 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 439235013845 Tetratricopeptide repeat; Region: TPR_16; pfam13432 439235013846 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235013847 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 439235013848 binding surface 439235013849 TPR motif; other site 439235013850 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235013851 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235013852 Tetratricopeptide repeat; Region: TPR_10; pfam13374 439235013853 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235013854 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 439235013855 binding surface 439235013856 TPR motif; other site 439235013857 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235013858 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 439235013859 binding surface 439235013860 TPR motif; other site 439235013861 Transposase [DNA replication, recombination, and repair]; Region: COG5421 439235013862 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235013863 Tetratricopeptide repeat; Region: TPR_10; cl17452 439235013864 Tetratricopeptide repeat; Region: TPR_10; pfam13374 439235013865 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 439235013866 Walker A motif; other site 439235013867 AMIN domain; Region: AMIN; pfam11741 439235013868 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 439235013869 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 439235013870 active site 439235013871 metal binding site [ion binding]; metal-binding site 439235013872 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 439235013873 MutS domain I; Region: MutS_I; pfam01624 439235013874 MutS domain II; Region: MutS_II; pfam05188 439235013875 MutS domain III; Region: MutS_III; pfam05192 439235013876 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 439235013877 Walker A/P-loop; other site 439235013878 ATP binding site [chemical binding]; other site 439235013879 Q-loop/lid; other site 439235013880 ABC transporter signature motif; other site 439235013881 Walker B; other site 439235013882 D-loop; other site 439235013883 H-loop/switch region; other site 439235013884 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 439235013885 nucleotide binding site/active site [active] 439235013886 HIT family signature motif; other site 439235013887 catalytic residue [active] 439235013888 hypothetical protein; Provisional; Region: PRK04334 439235013889 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 439235013890 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235013891 Zn2+ binding site [ion binding]; other site 439235013892 Mg2+ binding site [ion binding]; other site 439235013893 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 439235013894 ATP-grasp domain; Region: ATP-grasp_4; cl17255 439235013895 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 439235013896 Walker A motif; other site 439235013897 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 439235013898 Uncharacterized conserved protein [Function unknown]; Region: COG1656 439235013899 Protein of unknown function DUF82; Region: DUF82; pfam01927 439235013900 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 439235013901 Sel1-like repeats; Region: SEL1; smart00671 439235013902 Sel1-like repeats; Region: SEL1; smart00671 439235013903 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 439235013904 active site 439235013905 SAM binding site [chemical binding]; other site 439235013906 homodimer interface [polypeptide binding]; other site 439235013907 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 439235013908 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 439235013909 active site 439235013910 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 439235013911 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 439235013912 domain interfaces; other site 439235013913 active site 439235013914 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 439235013915 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 439235013916 competence damage-inducible protein A; Provisional; Region: PRK00549 439235013917 putative MPT binding site; other site 439235013918 Competence-damaged protein; Region: CinA; pfam02464 439235013919 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 439235013920 active site residue [active] 439235013921 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 439235013922 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439235013923 putative substrate translocation pore; other site 439235013924 Uncharacterized conserved protein [Function unknown]; Region: COG1359 439235013925 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 439235013926 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 439235013927 putative metal binding residues [ion binding]; other site 439235013928 signature motif; other site 439235013929 dimer interface [polypeptide binding]; other site 439235013930 active site 439235013931 polyP binding site; other site 439235013932 substrate binding site [chemical binding]; other site 439235013933 acceptor-phosphate pocket; other site 439235013934 Lamin Tail Domain; Region: LTD; pfam00932 439235013935 Lamin Tail Domain; Region: LTD; pfam00932 439235013936 Lamin Tail Domain; Region: LTD; pfam00932 439235013937 Lamin Tail Domain; Region: LTD; pfam00932 439235013938 Lamin Tail Domain; Region: LTD; pfam00932 439235013939 CotH protein; Region: CotH; pfam08757 439235013940 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235013941 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 439235013942 dimerization interface [polypeptide binding]; other site 439235013943 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 439235013944 dimer interface [polypeptide binding]; other site 439235013945 phosphorylation site [posttranslational modification] 439235013946 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 439235013947 ATP binding site [chemical binding]; other site 439235013948 Mg2+ binding site [ion binding]; other site 439235013949 G-X-G motif; other site 439235013950 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 439235013951 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 439235013952 active site 439235013953 phosphorylation site [posttranslational modification] 439235013954 intermolecular recognition site; other site 439235013955 dimerization interface [polypeptide binding]; other site 439235013956 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 439235013957 DNA binding site [nucleotide binding] 439235013958 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 439235013959 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 439235013960 Walker A motif; other site 439235013961 ATP binding site [chemical binding]; other site 439235013962 Walker B motif; other site 439235013963 arginine finger; other site 439235013964 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235013965 S-adenosylmethionine synthetase; Validated; Region: PRK05250 439235013966 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 439235013967 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 439235013968 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 439235013969 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 439235013970 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 439235013971 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 439235013972 active site 439235013973 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 439235013974 substrate binding site [chemical binding]; other site 439235013975 catalytic residues [active] 439235013976 dimer interface [polypeptide binding]; other site 439235013977 hypothetical protein; Provisional; Region: PRK07036 439235013978 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 439235013979 inhibitor-cofactor binding pocket; inhibition site 439235013980 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235013981 catalytic residue [active] 439235013982 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 439235013983 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 439235013984 tetrameric interface [polypeptide binding]; other site 439235013985 NAD binding site [chemical binding]; other site 439235013986 catalytic residues [active] 439235013987 substrate binding site [chemical binding]; other site 439235013988 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 439235013989 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235013990 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235013991 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 439235013992 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 439235013993 Ligand binding site [chemical binding]; other site 439235013994 Electron transfer flavoprotein domain; Region: ETF; pfam01012 439235013995 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 439235013996 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 439235013997 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 439235013998 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 439235013999 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 439235014000 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 439235014001 FAD binding domain; Region: FAD_binding_4; pfam01565 439235014002 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 439235014003 Cysteine-rich domain; Region: CCG; pfam02754 439235014004 Cysteine-rich domain; Region: CCG; pfam02754 439235014005 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 439235014006 FAD binding domain; Region: FAD_binding_4; pfam01565 439235014007 Catalytic domain of Protein Kinases; Region: PKc; cd00180 439235014008 active site 439235014009 ATP binding site [chemical binding]; other site 439235014010 substrate binding site [chemical binding]; other site 439235014011 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 439235014012 activation loop (A-loop); other site 439235014013 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 439235014014 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 439235014015 PAS domain; Region: PAS_9; pfam13426 439235014016 putative active site [active] 439235014017 heme pocket [chemical binding]; other site 439235014018 PAS fold; Region: PAS_4; pfam08448 439235014019 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 439235014020 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 439235014021 Walker A motif; other site 439235014022 ATP binding site [chemical binding]; other site 439235014023 Walker B motif; other site 439235014024 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235014025 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 439235014026 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235014027 acyl-activating enzyme (AAE) consensus motif; other site 439235014028 AMP binding site [chemical binding]; other site 439235014029 active site 439235014030 CoA binding site [chemical binding]; other site 439235014031 putative acyltransferase; Provisional; Region: PRK05790 439235014032 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 439235014033 dimer interface [polypeptide binding]; other site 439235014034 active site 439235014035 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 439235014036 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 439235014037 DUF35 OB-fold domain; Region: DUF35; pfam01796 439235014038 acetyl-CoA acetyltransferase; Provisional; Region: PRK08313 439235014039 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 439235014040 active site 439235014041 acetyl-CoA acetyltransferase; Provisional; Region: PRK08313 439235014042 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 439235014043 active site 439235014044 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 439235014045 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 439235014046 DUF35 OB-fold domain; Region: DUF35; pfam01796 439235014047 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 439235014048 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439235014049 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 439235014050 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235014051 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235014052 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 439235014053 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235014054 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235014055 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 439235014056 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 439235014057 ResB-like family; Region: ResB; pfam05140 439235014058 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 439235014059 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 439235014060 intersubunit interface [polypeptide binding]; other site 439235014061 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 439235014062 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 439235014063 ABC-ATPase subunit interface; other site 439235014064 dimer interface [polypeptide binding]; other site 439235014065 putative PBP binding regions; other site 439235014066 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 439235014067 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 439235014068 Walker A/P-loop; other site 439235014069 ATP binding site [chemical binding]; other site 439235014070 Q-loop/lid; other site 439235014071 ABC transporter signature motif; other site 439235014072 Walker B; other site 439235014073 D-loop; other site 439235014074 H-loop/switch region; other site 439235014075 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 439235014076 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 439235014077 FeS/SAM binding site; other site 439235014078 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 439235014079 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 439235014080 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 439235014081 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 439235014082 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 439235014083 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 439235014084 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 439235014085 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 439235014086 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 439235014087 N-terminal plug; other site 439235014088 ligand-binding site [chemical binding]; other site 439235014089 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 439235014090 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 439235014091 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 439235014092 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 439235014093 Walker A/P-loop; other site 439235014094 ATP binding site [chemical binding]; other site 439235014095 Q-loop/lid; other site 439235014096 ABC transporter signature motif; other site 439235014097 Walker B; other site 439235014098 D-loop; other site 439235014099 H-loop/switch region; other site 439235014100 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 439235014101 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 439235014102 Walker A/P-loop; other site 439235014103 ATP binding site [chemical binding]; other site 439235014104 Q-loop/lid; other site 439235014105 ABC transporter signature motif; other site 439235014106 Walker B; other site 439235014107 D-loop; other site 439235014108 H-loop/switch region; other site 439235014109 PQQ-like domain; Region: PQQ_2; pfam13360 439235014110 FOG: WD40-like repeat [Function unknown]; Region: COG1520 439235014111 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 439235014112 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 439235014113 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 439235014114 putative active site [active] 439235014115 catalytic site [active] 439235014116 putative metal binding site [ion binding]; other site 439235014117 oligomer interface [polypeptide binding]; other site 439235014118 Predicted amidohydrolase [General function prediction only]; Region: COG0388 439235014119 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 439235014120 active site 439235014121 catalytic triad [active] 439235014122 dimer interface [polypeptide binding]; other site 439235014123 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 439235014124 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 439235014125 active site 439235014126 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 439235014127 active site 439235014128 N-terminal domain interface [polypeptide binding]; other site 439235014129 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235014130 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 439235014131 active site 439235014132 phosphorylation site [posttranslational modification] 439235014133 intermolecular recognition site; other site 439235014134 dimerization interface [polypeptide binding]; other site 439235014135 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 439235014136 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 439235014137 dimerization interface [polypeptide binding]; other site 439235014138 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 439235014139 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 439235014140 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 439235014141 homodimer interaction site [polypeptide binding]; other site 439235014142 cofactor binding site; other site 439235014143 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 439235014144 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235014145 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 439235014146 acyl-activating enzyme (AAE) consensus motif; other site 439235014147 acyl-activating enzyme (AAE) consensus motif; other site 439235014148 putative AMP binding site [chemical binding]; other site 439235014149 putative active site [active] 439235014150 putative CoA binding site [chemical binding]; other site 439235014151 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235014152 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235014153 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 439235014154 Fic/DOC family; Region: Fic; cl00960 439235014155 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 439235014156 AAA domain; Region: AAA_33; pfam13671 439235014157 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 439235014158 active site 439235014159 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 439235014160 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 439235014161 putative dimer interface [polypeptide binding]; other site 439235014162 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 439235014163 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 439235014164 Transcriptional regulator [Transcription]; Region: LysR; COG0583 439235014165 EamA-like transporter family; Region: EamA; pfam00892 439235014166 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 439235014167 EamA-like transporter family; Region: EamA; pfam00892 439235014168 molybdate ABC transporter periplasmic substrate-binding protein; Provisional; Region: PRK04168 439235014169 tungstate ABC transporter binding protein WtpA; Region: tungstate_WtpA; TIGR03730 439235014170 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 439235014171 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 439235014172 dimer interface [polypeptide binding]; other site 439235014173 conserved gate region; other site 439235014174 putative PBP binding loops; other site 439235014175 ABC-ATPase subunit interface; other site 439235014176 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 439235014177 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235014178 Walker A/P-loop; other site 439235014179 ATP binding site [chemical binding]; other site 439235014180 Q-loop/lid; other site 439235014181 ABC transporter signature motif; other site 439235014182 Walker B; other site 439235014183 D-loop; other site 439235014184 H-loop/switch region; other site 439235014185 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 439235014186 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 439235014187 putative substrate translocation pore; other site 439235014188 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 439235014189 CGGC domain; Region: CGGC; pfam08821 439235014190 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 439235014191 Cupin domain; Region: Cupin_2; cl17218 439235014192 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 439235014193 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 439235014194 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439235014195 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439235014196 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 439235014197 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 439235014198 substrate binding site [chemical binding]; other site 439235014199 oxyanion hole (OAH) forming residues; other site 439235014200 trimer interface [polypeptide binding]; other site 439235014201 recombination factor protein RarA; Reviewed; Region: PRK13342 439235014202 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 439235014203 Walker A motif; other site 439235014204 ATP binding site [chemical binding]; other site 439235014205 Walker B motif; other site 439235014206 arginine finger; other site 439235014207 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 439235014208 acetylornithine deacetylase or succinyl-diaminopimelate desuccinylase; Region: DapE-ArgE; TIGR01910 439235014209 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 439235014210 metal binding site [ion binding]; metal-binding site 439235014211 dimer interface [polypeptide binding]; other site 439235014212 GTP-binding protein Der; Reviewed; Region: PRK00093 439235014213 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 439235014214 G1 box; other site 439235014215 GTP/Mg2+ binding site [chemical binding]; other site 439235014216 Switch I region; other site 439235014217 G2 box; other site 439235014218 Switch II region; other site 439235014219 G3 box; other site 439235014220 G4 box; other site 439235014221 G5 box; other site 439235014222 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 439235014223 G1 box; other site 439235014224 GTP/Mg2+ binding site [chemical binding]; other site 439235014225 Switch I region; other site 439235014226 G2 box; other site 439235014227 G3 box; other site 439235014228 Switch II region; other site 439235014229 G4 box; other site 439235014230 G5 box; other site 439235014231 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 439235014232 putative ligand binding pocket/active site [active] 439235014233 putative metal binding site [ion binding]; other site 439235014234 Lamin Tail Domain; Region: LTD; pfam00932 439235014235 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 439235014236 Uncharacterized conserved protein [Function unknown]; Region: COG2014 439235014237 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 439235014238 Domain of unknown function (DUF364); Region: DUF364; pfam04016 439235014239 DsrE/DsrF-like family; Region: DrsE; cl00672 439235014240 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 439235014241 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439235014242 NAD(P) binding site [chemical binding]; other site 439235014243 active site 439235014244 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 439235014245 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 439235014246 dihydrodipicolinate synthase; Region: dapA; TIGR00674 439235014247 dimer interface [polypeptide binding]; other site 439235014248 active site 439235014249 catalytic residue [active] 439235014250 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 439235014251 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 439235014252 active site 439235014253 motif I; other site 439235014254 motif II; other site 439235014255 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 439235014256 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 439235014257 Domain of unknown function (DUF4301); Region: DUF4301; pfam14134 439235014258 DNA polymerase III subunit beta; Validated; Region: PRK05643 439235014259 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 439235014260 putative DNA binding surface [nucleotide binding]; other site 439235014261 dimer interface [polypeptide binding]; other site 439235014262 beta-clamp/clamp loader binding surface; other site 439235014263 beta-clamp/translesion DNA polymerase binding surface; other site 439235014264 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 439235014265 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 439235014266 Mg2+ binding site [ion binding]; other site 439235014267 G-X-G motif; other site 439235014268 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 439235014269 anchoring element; other site 439235014270 dimer interface [polypeptide binding]; other site 439235014271 ATP binding site [chemical binding]; other site 439235014272 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 439235014273 active site 439235014274 putative metal-binding site [ion binding]; other site 439235014275 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 439235014276 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 439235014277 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 439235014278 FeS/SAM binding site; other site 439235014279 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 439235014280 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 439235014281 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 439235014282 ribonuclease G; Provisional; Region: PRK11712 439235014283 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 439235014284 homodimer interface [polypeptide binding]; other site 439235014285 oligonucleotide binding site [chemical binding]; other site 439235014286 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 439235014287 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 439235014288 GTPase CgtA; Reviewed; Region: obgE; PRK12299 439235014289 GTP1/OBG; Region: GTP1_OBG; pfam01018 439235014290 Obg GTPase; Region: Obg; cd01898 439235014291 G1 box; other site 439235014292 GTP/Mg2+ binding site [chemical binding]; other site 439235014293 Switch I region; other site 439235014294 G2 box; other site 439235014295 G3 box; other site 439235014296 Switch II region; other site 439235014297 G4 box; other site 439235014298 G5 box; other site 439235014299 gamma-glutamyl kinase; Provisional; Region: PRK05429 439235014300 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 439235014301 nucleotide binding site [chemical binding]; other site 439235014302 homotetrameric interface [polypeptide binding]; other site 439235014303 putative phosphate binding site [ion binding]; other site 439235014304 putative allosteric binding site; other site 439235014305 PUA domain; Region: PUA; pfam01472 439235014306 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 439235014307 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 439235014308 putative catalytic cysteine [active] 439235014309 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 439235014310 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 439235014311 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 439235014312 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 439235014313 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 439235014314 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 439235014315 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 439235014316 FeS/SAM binding site; other site 439235014317 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 439235014318 TPR motif; other site 439235014319 TPR repeat; Region: TPR_11; pfam13414 439235014320 binding surface 439235014321 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 439235014322 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 439235014323 Walker A/P-loop; other site 439235014324 ATP binding site [chemical binding]; other site 439235014325 Q-loop/lid; other site 439235014326 ABC transporter signature motif; other site 439235014327 Walker B; other site 439235014328 D-loop; other site 439235014329 H-loop/switch region; other site 439235014330 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439235014331 Coenzyme A binding pocket [chemical binding]; other site 439235014332 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 439235014333 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 439235014334 active site 439235014335 (T/H)XGH motif; other site 439235014336 Oligomerisation domain; Region: Oligomerisation; pfam02410 439235014337 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 439235014338 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 439235014339 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 439235014340 trmE is a tRNA modification GTPase; Region: trmE; cd04164 439235014341 G1 box; other site 439235014342 GTP/Mg2+ binding site [chemical binding]; other site 439235014343 Switch I region; other site 439235014344 G2 box; other site 439235014345 Switch II region; other site 439235014346 G3 box; other site 439235014347 G4 box; other site 439235014348 G5 box; other site 439235014349 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 439235014350 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 439235014351 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 439235014352 G-X-X-G motif; other site 439235014353 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 439235014354 RxxxH motif; other site 439235014355 membrane protein insertase; Provisional; Region: PRK01318 439235014356 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 439235014357 Haemolytic domain; Region: Haemolytic; pfam01809 439235014358 Ribonuclease P; Region: Ribonuclease_P; pfam00825 439235014359 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 439235014360 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 439235014361 trimer interface [polypeptide binding]; other site 439235014362 dimer interface [polypeptide binding]; other site 439235014363 putative active site [active] 439235014364 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 439235014365 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 439235014366 GTP binding site; other site 439235014367 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 439235014368 DsrC like protein; Region: DsrC; pfam04358 439235014369 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 439235014370 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 439235014371 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 439235014372 Predicted amidohydrolase [General function prediction only]; Region: COG0388 439235014373 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_7; cd07585 439235014374 putative active site [active] 439235014375 catalytic triad [active] 439235014376 putative dimer interface [polypeptide binding]; other site 439235014377 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 439235014378 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 439235014379 dimer interface [polypeptide binding]; other site 439235014380 PYR/PP interface [polypeptide binding]; other site 439235014381 TPP binding site [chemical binding]; other site 439235014382 substrate binding site [chemical binding]; other site 439235014383 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 439235014384 Domain of unknown function; Region: EKR; smart00890 439235014385 4Fe-4S binding domain; Region: Fer4_6; pfam12837 439235014386 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 439235014387 TPP-binding site [chemical binding]; other site 439235014388 dimer interface [polypeptide binding]; other site 439235014389 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 439235014390 active site 439235014391 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 439235014392 dimerization interface [polypeptide binding]; other site 439235014393 active site 439235014394 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 439235014395 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235014396 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235014397 acyl-activating enzyme (AAE) consensus motif; other site 439235014398 AMP binding site [chemical binding]; other site 439235014399 active site 439235014400 CoA binding site [chemical binding]; other site 439235014401 Protein of unknown function (DUF342); Region: DUF342; pfam03961 439235014402 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 439235014403 active site 439235014404 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 439235014405 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 439235014406 FeS/SAM binding site; other site 439235014407 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 439235014408 Ligand Binding Site [chemical binding]; other site 439235014409 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 439235014410 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 439235014411 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439235014412 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 439235014413 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 439235014414 NAD(P) binding site [chemical binding]; other site 439235014415 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 439235014416 Cupin domain; Region: Cupin_2; pfam07883 439235014417 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 439235014418 dimer interface [polypeptide binding]; other site 439235014419 substrate binding site [chemical binding]; other site 439235014420 metal binding site [ion binding]; metal-binding site 439235014421 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 439235014422 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 439235014423 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 439235014424 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 439235014425 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439235014426 NAD(P) binding site [chemical binding]; other site 439235014427 active site 439235014428 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 439235014429 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 439235014430 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 439235014431 PYR/PP interface [polypeptide binding]; other site 439235014432 dimer interface [polypeptide binding]; other site 439235014433 TPP binding site [chemical binding]; other site 439235014434 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 439235014435 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 439235014436 TPP-binding site; other site 439235014437 dimer interface [polypeptide binding]; other site 439235014438 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235014439 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235014440 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235014441 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235014442 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439235014443 active site 439235014444 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 439235014445 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 439235014446 Walker A; other site 439235014447 Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]; Region: Sbm; COG2185 439235014448 B12 binding site [chemical binding]; other site 439235014449 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 439235014450 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235014451 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 439235014452 active site 439235014453 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235014454 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235014455 active site 439235014456 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 439235014457 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 439235014458 Walker A motif; other site 439235014459 ATP binding site [chemical binding]; other site 439235014460 Walker B motif; other site 439235014461 arginine finger; other site 439235014462 Predicted membrane protein [Function unknown]; Region: COG3174 439235014463 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 439235014464 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 439235014465 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; cd00397 439235014466 active site 439235014467 DNA binding site [nucleotide binding] 439235014468 Int/Topo IB signature motif; other site 439235014469 Fic family protein [Function unknown]; Region: COG3177 439235014470 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 439235014471 Fic/DOC family; Region: Fic; pfam02661 439235014472 Helix-turn-helix domain; Region: HTH_36; pfam13730 439235014473 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 439235014474 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 439235014475 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 439235014476 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 439235014477 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 439235014478 heme-binding residues [chemical binding]; other site 439235014479 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 439235014480 5-oxoprolinase; Region: PLN02666 439235014481 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 439235014482 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 439235014483 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 439235014484 active site 439235014485 oxyanion hole [active] 439235014486 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 439235014487 catalytic triad [active] 439235014488 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 439235014489 Double zinc ribbon; Region: DZR; pfam12773 439235014490 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 439235014491 Double zinc ribbon; Region: DZR; pfam12773 439235014492 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 439235014493 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 439235014494 DDE superfamily endonuclease; Region: DDE_5; cl17874 439235014495 Tyrosine phosphatase family; Region: Y_phosphatase2; pfam03162 439235014496 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 439235014497 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 439235014498 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 439235014499 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 439235014500 B12 binding site [chemical binding]; other site 439235014501 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 439235014502 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 439235014503 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 439235014504 anti sigma factor interaction site; other site 439235014505 regulatory phosphorylation site [posttranslational modification]; other site 439235014506 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 439235014507 homodimer interface [polypeptide binding]; other site 439235014508 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 439235014509 active site pocket [active] 439235014510 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 439235014511 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 439235014512 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235014513 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235014514 active site 439235014515 CoA binding site [chemical binding]; other site 439235014516 AMP binding site [chemical binding]; other site 439235014517 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 439235014518 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439235014519 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 439235014520 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 439235014521 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439235014522 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 439235014523 Coenzyme A binding pocket [chemical binding]; other site 439235014524 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 439235014525 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 439235014526 molybdopterin cofactor binding site; other site 439235014527 The MopB_CT_DMSOR-like CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-like; cd02777 439235014528 molybdopterin cofactor binding site; other site 439235014529 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 439235014530 PAS domain S-box; Region: sensory_box; TIGR00229 439235014531 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 439235014532 PAS domain; Region: PAS_9; pfam13426 439235014533 putative active site [active] 439235014534 heme pocket [chemical binding]; other site 439235014535 Sensory domain found in PocR; Region: PocR; pfam10114 439235014536 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 439235014537 PAS domain S-box; Region: sensory_box; TIGR00229 439235014538 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 439235014539 putative active site [active] 439235014540 heme pocket [chemical binding]; other site 439235014541 PAS domain S-box; Region: sensory_box; TIGR00229 439235014542 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 439235014543 putative active site [active] 439235014544 heme pocket [chemical binding]; other site 439235014545 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 439235014546 dimer interface [polypeptide binding]; other site 439235014547 phosphorylation site [posttranslational modification] 439235014548 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 439235014549 ATP binding site [chemical binding]; other site 439235014550 Mg2+ binding site [ion binding]; other site 439235014551 G-X-G motif; other site 439235014552 Response regulator receiver domain; Region: Response_reg; pfam00072 439235014553 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 439235014554 active site 439235014555 phosphorylation site [posttranslational modification] 439235014556 intermolecular recognition site; other site 439235014557 dimerization interface [polypeptide binding]; other site 439235014558 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 439235014559 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 439235014560 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 439235014561 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 439235014562 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 439235014563 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 439235014564 active site 439235014565 dimer interface [polypeptide binding]; other site 439235014566 motif 1; other site 439235014567 motif 2; other site 439235014568 motif 3; other site 439235014569 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 439235014570 anticodon binding site; other site 439235014571 Putative regulatory protein; Region: CxxC_CXXC_SSSS; smart00834 439235014572 GAF domain; Region: GAF_2; pfam13185 439235014573 GAF domain; Region: GAF; pfam01590 439235014574 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 439235014575 cyclase homology domain; Region: CHD; cd07302 439235014576 nucleotidyl binding site; other site 439235014577 metal binding site [ion binding]; metal-binding site 439235014578 dimer interface [polypeptide binding]; other site 439235014579 EamA-like transporter family; Region: EamA; pfam00892 439235014580 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 439235014581 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 439235014582 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 439235014583 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 439235014584 cyclase homology domain; Region: CHD; cd07302 439235014585 nucleotidyl binding site; other site 439235014586 metal binding site [ion binding]; metal-binding site 439235014587 dimer interface [polypeptide binding]; other site 439235014588 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 439235014589 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 439235014590 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 439235014591 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235014592 Walker A/P-loop; other site 439235014593 ATP binding site [chemical binding]; other site 439235014594 Q-loop/lid; other site 439235014595 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 439235014596 ABC transporter; Region: ABC_tran_2; pfam12848 439235014597 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 439235014598 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 439235014599 Sel1-like repeats; Region: SEL1; smart00671 439235014600 Sel1-like repeats; Region: SEL1; smart00671 439235014601 Sel1-like repeats; Region: SEL1; smart00671 439235014602 Sel1-like repeats; Region: SEL1; smart00671 439235014603 Sel1-like repeats; Region: SEL1; smart00671 439235014604 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 439235014605 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 439235014606 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 439235014607 Domain of unknown function DUF11; Region: DUF11; pfam01345 439235014608 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4719 439235014609 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 439235014610 Domain of unknown function DUF11; Region: DUF11; pfam01345 439235014611 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 439235014612 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 439235014613 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 439235014614 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 439235014615 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 439235014616 active site residue [active] 439235014617 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 439235014618 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 439235014619 CPxP motif; other site 439235014620 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 439235014621 PAS domain; Region: PAS_9; pfam13426 439235014622 putative active site [active] 439235014623 heme pocket [chemical binding]; other site 439235014624 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 439235014625 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 439235014626 Walker A motif; other site 439235014627 ATP binding site [chemical binding]; other site 439235014628 Walker B motif; other site 439235014629 arginine finger; other site 439235014630 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235014631 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235014632 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 439235014633 ATP binding site [chemical binding]; other site 439235014634 G-X-G motif; other site 439235014635 Response regulator receiver domain; Region: Response_reg; pfam00072 439235014636 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 439235014637 active site 439235014638 phosphorylation site [posttranslational modification] 439235014639 intermolecular recognition site; other site 439235014640 dimerization interface [polypeptide binding]; other site 439235014641 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 439235014642 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 439235014643 DUF35 OB-fold domain; Region: DUF35; pfam01796 439235014644 thiolase; Provisional; Region: PRK06158 439235014645 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 439235014646 active site 439235014647 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 439235014648 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 439235014649 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 439235014650 ring oligomerisation interface [polypeptide binding]; other site 439235014651 ATP/Mg binding site [chemical binding]; other site 439235014652 stacking interactions; other site 439235014653 hinge regions; other site 439235014654 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 439235014655 oligomerisation interface [polypeptide binding]; other site 439235014656 mobile loop; other site 439235014657 roof hairpin; other site 439235014658 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 439235014659 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 439235014660 GAF domain; Region: GAF; pfam01590 439235014661 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235014662 Zn2+ binding site [ion binding]; other site 439235014663 Mg2+ binding site [ion binding]; other site 439235014664 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235014665 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 439235014666 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 439235014667 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 439235014668 PBP superfamily domain; Region: PBP_like_2; cl17296 439235014669 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 439235014670 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 439235014671 molybdopterin cofactor binding site; other site 439235014672 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 439235014673 putative molybdopterin cofactor binding site; other site 439235014674 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 439235014675 active site 439235014676 oxyanion hole [active] 439235014677 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 439235014678 TPR motif; other site 439235014679 TPR repeat; Region: TPR_11; pfam13414 439235014680 binding surface 439235014681 RHS Repeat; Region: RHS_repeat; cl11982 439235014682 RHS Repeat; Region: RHS_repeat; cl11982 439235014683 Transposase IS200 like; Region: Y1_Tnp; cl00848 439235014684 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 439235014685 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 439235014686 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 439235014687 Protein export membrane protein; Region: SecD_SecF; cl14618 439235014688 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439235014689 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 439235014690 ligand binding site [chemical binding]; other site 439235014691 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439235014692 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439235014693 metal binding site [ion binding]; metal-binding site 439235014694 active site 439235014695 I-site; other site 439235014696 Phage protein Gp37/Gp68; Region: Gp37_Gp68; pfam07505 439235014697 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 439235014698 AzlC protein; Region: AzlC; pfam03591 439235014699 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 439235014700 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 439235014701 trimer interface [polypeptide binding]; other site 439235014702 putative metal binding site [ion binding]; other site 439235014703 CheD chemotactic sensory transduction; Region: CheD; cl00810 439235014704 pantothenate kinase; Reviewed; Region: PRK13318 439235014705 YbbR-like protein; Region: YbbR; pfam07949 439235014706 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 439235014707 dihydropteroate synthase; Region: DHPS; TIGR01496 439235014708 substrate binding pocket [chemical binding]; other site 439235014709 dimer interface [polypeptide binding]; other site 439235014710 inhibitor binding site; inhibition site 439235014711 FtsH Extracellular; Region: FtsH_ext; pfam06480 439235014712 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 439235014713 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 439235014714 Walker A motif; other site 439235014715 ATP binding site [chemical binding]; other site 439235014716 Walker B motif; other site 439235014717 arginine finger; other site 439235014718 Peptidase family M41; Region: Peptidase_M41; pfam01434 439235014719 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 439235014720 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 439235014721 Ligand Binding Site [chemical binding]; other site 439235014722 TilS substrate C-terminal domain; Region: TilS_C; smart00977 439235014723 Protein of unknown function (DUF3568); Region: DUF3568; pfam12092 439235014724 octaprenyl-diphosphate synthase; Region: PLN02857 439235014725 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 439235014726 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 439235014727 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 439235014728 active site 439235014729 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 439235014730 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 439235014731 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 439235014732 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 439235014733 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 439235014734 putative dimer interface [polypeptide binding]; other site 439235014735 putative anticodon binding site; other site 439235014736 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 439235014737 homodimer interface [polypeptide binding]; other site 439235014738 motif 1; other site 439235014739 motif 2; other site 439235014740 active site 439235014741 motif 3; other site 439235014742 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 439235014743 Predicted amidohydrolase [General function prediction only]; Region: COG0388 439235014744 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 439235014745 active site 439235014746 catalytic triad [active] 439235014747 dimer interface [polypeptide binding]; other site 439235014748 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 439235014749 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 439235014750 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 439235014751 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 439235014752 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 439235014753 active site 439235014754 Transposase [DNA replication, recombination, and repair]; Region: COG5421 439235014755 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 439235014756 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 439235014757 salt bridge; other site 439235014758 non-specific DNA binding site [nucleotide binding]; other site 439235014759 sequence-specific DNA binding site [nucleotide binding]; other site 439235014760 Domain of unknown function (DUF955); Region: DUF955; cl01076 439235014761 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 439235014762 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 439235014763 HIGH motif; other site 439235014764 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 439235014765 active site 439235014766 KMSKS motif; other site 439235014767 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 439235014768 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 439235014769 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 439235014770 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 439235014771 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 439235014772 TPR motif; other site 439235014773 binding surface 439235014774 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 439235014775 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 439235014776 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 439235014777 catalytic triad [active] 439235014778 Dissimilatory sulfite reductase D (DsrD); Region: DsrD; pfam08679 439235014779 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 439235014780 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 439235014781 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 439235014782 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 439235014783 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 439235014784 binding surface 439235014785 TPR motif; other site 439235014786 TPR repeat; Region: TPR_11; pfam13414 439235014787 TPR repeat; Region: TPR_11; pfam13414 439235014788 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 439235014789 binding surface 439235014790 TPR motif; other site 439235014791 TPR repeat; Region: TPR_11; pfam13414 439235014792 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 439235014793 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 439235014794 S-adenosylmethionine binding site [chemical binding]; other site 439235014795 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 439235014796 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 439235014797 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 439235014798 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 439235014799 ATP synthase subunit C; Region: ATP-synt_C; cl00466 439235014800 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 439235014801 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 439235014802 ATP synthase subunit C; Region: ATP-synt_C; cl00466 439235014803 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 439235014804 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 439235014805 F0F1 ATP synthase subunit B; Provisional; Region: PRK13461 439235014806 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 439235014807 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 439235014808 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 439235014809 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 439235014810 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 439235014811 FeS/SAM binding site; other site 439235014812 YdjC-like protein; Region: YdjC; pfam04794 439235014813 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 439235014814 active site 439235014815 metal binding site [ion binding]; metal-binding site 439235014816 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 439235014817 PAS domain; Region: PAS; smart00091 439235014818 PAS domain; Region: PAS_9; pfam13426 439235014819 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 439235014820 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235014821 putative active site [active] 439235014822 heme pocket [chemical binding]; other site 439235014823 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 439235014824 putative active site [active] 439235014825 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235014826 heme pocket [chemical binding]; other site 439235014827 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 439235014828 dimer interface [polypeptide binding]; other site 439235014829 phosphorylation site [posttranslational modification] 439235014830 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 439235014831 ATP binding site [chemical binding]; other site 439235014832 Mg2+ binding site [ion binding]; other site 439235014833 G-X-G motif; other site 439235014834 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 439235014835 Strictosidine synthase; Region: Str_synth; pfam03088 439235014836 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 439235014837 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 439235014838 N-terminal plug; other site 439235014839 ligand-binding site [chemical binding]; other site 439235014840 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 439235014841 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 439235014842 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439235014843 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439235014844 metal binding site [ion binding]; metal-binding site 439235014845 active site 439235014846 I-site; other site 439235014847 Uncharacterized conserved protein [Function unknown]; Region: COG5276 439235014848 LVIVD repeat; Region: LVIVD; pfam08309 439235014849 Protein of unknown function (DUF1847); Region: DUF1847; pfam08901 439235014850 Protein of unknown function (DUF1178); Region: DUF1178; cl17833 439235014851 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 439235014852 Bacterial SH3 domain; Region: SH3_3; pfam08239 439235014853 Protein of unknown function (DUF972); Region: DUF972; pfam06156 439235014854 L-aspartate oxidase; Provisional; Region: PRK09077 439235014855 L-aspartate oxidase; Provisional; Region: PRK06175 439235014856 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 439235014857 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 439235014858 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 439235014859 S-adenosylmethionine binding site [chemical binding]; other site 439235014860 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 439235014861 TPR motif; other site 439235014862 binding surface 439235014863 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 439235014864 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 439235014865 substrate binding site [chemical binding]; other site 439235014866 ATP binding site [chemical binding]; other site 439235014867 Uncharacterized conserved protein [Function unknown]; Region: COG4715 439235014868 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 439235014869 FeS/SAM binding site; other site 439235014870 Radical SAM superfamily; Region: Radical_SAM; pfam04055 439235014871 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 439235014872 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439235014873 Coenzyme A binding pocket [chemical binding]; other site 439235014874 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 439235014875 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 439235014876 Catalytic site [active] 439235014877 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 439235014878 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 439235014879 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 439235014880 DNA binding residues [nucleotide binding] 439235014881 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 439235014882 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 439235014883 catalytic loop [active] 439235014884 iron binding site [ion binding]; other site 439235014885 4Fe-4S binding domain; Region: Fer4; pfam00037 439235014886 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 439235014887 [4Fe-4S] binding site [ion binding]; other site 439235014888 molybdopterin cofactor binding site; other site 439235014889 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 439235014890 molybdopterin cofactor binding site; other site 439235014891 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235014892 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235014893 active site 439235014894 selenocysteine synthase; Provisional; Region: PRK04311 439235014895 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 439235014896 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 439235014897 catalytic residue [active] 439235014898 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 439235014899 TPR motif; other site 439235014900 binding surface 439235014901 TPR repeat; Region: TPR_11; pfam13414 439235014902 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 439235014903 binding surface 439235014904 TPR motif; other site 439235014905 TPR repeat; Region: TPR_11; pfam13414 439235014906 TPR repeat; Region: TPR_11; pfam13414 439235014907 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 439235014908 binding surface 439235014909 TPR motif; other site 439235014910 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 439235014911 dimer interface [polypeptide binding]; other site 439235014912 active site 439235014913 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 439235014914 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 439235014915 trimerization site [polypeptide binding]; other site 439235014916 active site 439235014917 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 439235014918 heme-binding residues [chemical binding]; other site 439235014919 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 439235014920 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235014921 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 439235014922 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 439235014923 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 439235014924 FMN-binding domain; Region: FMN_bind; cl01081 439235014925 electron transport complex RsxE subunit; Provisional; Region: PRK12405 439235014926 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 439235014927 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 439235014928 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 439235014929 FAD binding pocket [chemical binding]; other site 439235014930 FAD binding motif [chemical binding]; other site 439235014931 phosphate binding motif [ion binding]; other site 439235014932 beta-alpha-beta structure motif; other site 439235014933 NAD binding pocket [chemical binding]; other site 439235014934 Iron coordination center [ion binding]; other site 439235014935 putative oxidoreductase; Provisional; Region: PRK12831 439235014936 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 439235014937 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 439235014938 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 439235014939 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 439235014940 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 439235014941 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 439235014942 Walker A motif; other site 439235014943 ATP binding site [chemical binding]; other site 439235014944 Walker B motif; other site 439235014945 arginine finger; other site 439235014946 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 439235014947 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439235014948 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 439235014949 4Fe-4S binding domain; Region: Fer4; cl02805 439235014950 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235014951 4Fe-4S binding domain; Region: Fer4; pfam00037 439235014952 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235014953 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235014954 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 439235014955 TPR repeat; Region: TPR_11; pfam13414 439235014956 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 439235014957 binding surface 439235014958 TPR motif; other site 439235014959 TPR repeat; Region: TPR_11; pfam13414 439235014960 TPR repeat; Region: TPR_11; pfam13414 439235014961 Sporulation related domain; Region: SPOR; pfam05036 439235014962 Helix-turn-helix domain; Region: HTH_17; pfam12728 439235014963 PBP superfamily domain; Region: PBP_like; pfam12727 439235014964 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 439235014965 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 439235014966 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 439235014967 P-loop; other site 439235014968 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 439235014969 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 439235014970 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 439235014971 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 439235014972 Response regulator receiver domain; Region: Response_reg; pfam00072 439235014973 active site 439235014974 phosphorylation site [posttranslational modification] 439235014975 intermolecular recognition site; other site 439235014976 dimerization interface [polypeptide binding]; other site 439235014977 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 439235014978 EamA-like transporter family; Region: EamA; pfam00892 439235014979 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 439235014980 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 439235014981 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 439235014982 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 439235014983 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 439235014984 DNA binding site [nucleotide binding] 439235014985 active site 439235014986 Uncharacterized conserved protein [Function unknown]; Region: COG2006 439235014987 hypothetical protein; Provisional; Region: PRK13795 439235014988 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 439235014989 CoA binding domain; Region: CoA_binding_2; pfam13380 439235014990 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 439235014991 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 439235014992 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 439235014993 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 439235014994 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 439235014995 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 439235014996 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439235014997 Coenzyme A binding pocket [chemical binding]; other site 439235014998 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 439235014999 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 439235015000 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 439235015001 Walker A/P-loop; other site 439235015002 ATP binding site [chemical binding]; other site 439235015003 Q-loop/lid; other site 439235015004 ABC transporter signature motif; other site 439235015005 Walker B; other site 439235015006 D-loop; other site 439235015007 H-loop/switch region; other site 439235015008 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 439235015009 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 439235015010 Walker A/P-loop; other site 439235015011 ATP binding site [chemical binding]; other site 439235015012 Q-loop/lid; other site 439235015013 ABC transporter signature motif; other site 439235015014 Walker B; other site 439235015015 D-loop; other site 439235015016 H-loop/switch region; other site 439235015017 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 439235015018 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 439235015019 TM-ABC transporter signature motif; other site 439235015020 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 439235015021 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 439235015022 TM-ABC transporter signature motif; other site 439235015023 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 439235015024 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 439235015025 dimerization interface [polypeptide binding]; other site 439235015026 ligand binding site [chemical binding]; other site 439235015027 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 439235015028 ATP-NAD kinase; Region: NAD_kinase; pfam01513 439235015029 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 439235015030 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 439235015031 substrate binding site; other site 439235015032 dimer interface; other site 439235015033 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 439235015034 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439235015035 Coenzyme A binding pocket [chemical binding]; other site 439235015036 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 439235015037 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 439235015038 seryl-tRNA synthetase; Provisional; Region: PRK05431 439235015039 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 439235015040 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 439235015041 dimer interface [polypeptide binding]; other site 439235015042 active site 439235015043 motif 1; other site 439235015044 motif 2; other site 439235015045 motif 3; other site 439235015046 threonine synthase; Validated; Region: PRK06260 439235015047 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 439235015048 homodimer interface [polypeptide binding]; other site 439235015049 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235015050 catalytic residue [active] 439235015051 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 439235015052 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 439235015053 binding surface 439235015054 TPR motif; other site 439235015055 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235015056 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235015057 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 439235015058 binding surface 439235015059 TPR motif; other site 439235015060 TPR repeat; Region: TPR_11; pfam13414 439235015061 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 439235015062 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 439235015063 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 439235015064 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 439235015065 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 439235015066 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 439235015067 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 439235015068 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 439235015069 Fe-S cluster binding site [ion binding]; other site 439235015070 active site 439235015071 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 439235015072 Flavoprotein; Region: Flavoprotein; pfam02441 439235015073 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 439235015074 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 439235015075 putative ADP-binding pocket [chemical binding]; other site 439235015076 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439235015077 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439235015078 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 439235015079 putative ADP-binding pocket [chemical binding]; other site 439235015080 Methyltransferase domain; Region: Methyltransf_31; pfam13847 439235015081 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 439235015082 S-adenosylmethionine binding site [chemical binding]; other site 439235015083 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 439235015084 Septum formation initiator; Region: DivIC; pfam04977 439235015085 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 439235015086 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 439235015087 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 439235015088 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 439235015089 Helix-turn-helix domain; Region: HTH_18; pfam12833 439235015090 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 439235015091 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235015092 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235015093 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 439235015094 Uncharacterized conserved protein [Function unknown]; Region: COG4715 439235015095 SWIM zinc finger; Region: SWIM; pfam04434 439235015096 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 439235015097 Acyltransferase family; Region: Acyl_transf_3; pfam01757 439235015098 GAF domain; Region: GAF_2; pfam13185 439235015099 GAF domain; Region: GAF_3; pfam13492 439235015100 PAS domain S-box; Region: sensory_box; TIGR00229 439235015101 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 439235015102 putative active site [active] 439235015103 heme pocket [chemical binding]; other site 439235015104 PAS domain S-box; Region: sensory_box; TIGR00229 439235015105 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 439235015106 putative active site [active] 439235015107 heme pocket [chemical binding]; other site 439235015108 PAS domain; Region: PAS; smart00091 439235015109 PAS domain S-box; Region: sensory_box; TIGR00229 439235015110 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 439235015111 putative active site [active] 439235015112 heme pocket [chemical binding]; other site 439235015113 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 439235015114 dimer interface [polypeptide binding]; other site 439235015115 phosphorylation site [posttranslational modification] 439235015116 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 439235015117 ATP binding site [chemical binding]; other site 439235015118 Mg2+ binding site [ion binding]; other site 439235015119 G-X-G motif; other site 439235015120 Response regulator receiver domain; Region: Response_reg; pfam00072 439235015121 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 439235015122 active site 439235015123 phosphorylation site [posttranslational modification] 439235015124 intermolecular recognition site; other site 439235015125 dimerization interface [polypeptide binding]; other site 439235015126 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 439235015127 D-galactonate transporter; Region: 2A0114; TIGR00893 439235015128 putative substrate translocation pore; other site 439235015129 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235015130 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235015131 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 439235015132 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 439235015133 Rubrerythrin [Energy production and conversion]; Region: COG1592 439235015134 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 439235015135 binuclear metal center [ion binding]; other site 439235015136 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 439235015137 iron binding site [ion binding]; other site 439235015138 enoyl-CoA hydratase; Provisional; Region: PRK05980 439235015139 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 439235015140 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 439235015141 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 439235015142 DctM-like transporters; Region: DctM; pfam06808 439235015143 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 439235015144 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 439235015145 Permease; Region: Permease; pfam02405 439235015146 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 439235015147 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 439235015148 Walker A/P-loop; other site 439235015149 ATP binding site [chemical binding]; other site 439235015150 Q-loop/lid; other site 439235015151 ABC transporter signature motif; other site 439235015152 Walker B; other site 439235015153 D-loop; other site 439235015154 H-loop/switch region; other site 439235015155 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439235015156 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439235015157 metal binding site [ion binding]; metal-binding site 439235015158 active site 439235015159 I-site; other site 439235015160 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 439235015161 mce related protein; Region: MCE; pfam02470 439235015162 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 439235015163 VacJ like lipoprotein; Region: VacJ; cl01073 439235015164 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 439235015165 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 439235015166 active site 439235015167 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 439235015168 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 439235015169 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 439235015170 DNA binding residues [nucleotide binding] 439235015171 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 439235015172 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 439235015173 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 439235015174 PDZ-like domain; Region: PDZ_1; pfam12812 439235015175 Transposase IS200 like; Region: Y1_Tnp; cl00848 439235015176 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235015177 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235015178 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 439235015179 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 439235015180 L-aspartate oxidase; Provisional; Region: PRK06175 439235015181 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 439235015182 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 439235015183 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 439235015184 hypothetical protein; Provisional; Region: PRK07906 439235015185 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 439235015186 putative metal binding site [ion binding]; other site 439235015187 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 439235015188 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 439235015189 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 439235015190 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 439235015191 PAS domain S-box; Region: sensory_box; TIGR00229 439235015192 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 439235015193 putative active site [active] 439235015194 heme pocket [chemical binding]; other site 439235015195 PAS domain S-box; Region: sensory_box; TIGR00229 439235015196 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 439235015197 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 439235015198 dimer interface [polypeptide binding]; other site 439235015199 phosphorylation site [posttranslational modification] 439235015200 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 439235015201 ATP binding site [chemical binding]; other site 439235015202 Mg2+ binding site [ion binding]; other site 439235015203 G-X-G motif; other site 439235015204 Response regulator receiver domain; Region: Response_reg; pfam00072 439235015205 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 439235015206 active site 439235015207 phosphorylation site [posttranslational modification] 439235015208 intermolecular recognition site; other site 439235015209 dimerization interface [polypeptide binding]; other site 439235015210 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 439235015211 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439235015212 Coenzyme A binding pocket [chemical binding]; other site 439235015213 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 439235015214 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 439235015215 PAS domain; Region: PAS_9; pfam13426 439235015216 putative active site [active] 439235015217 heme pocket [chemical binding]; other site 439235015218 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 439235015219 dimer interface [polypeptide binding]; other site 439235015220 phosphorylation site [posttranslational modification] 439235015221 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 439235015222 ATP binding site [chemical binding]; other site 439235015223 Mg2+ binding site [ion binding]; other site 439235015224 G-X-G motif; other site 439235015225 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 439235015226 active site 439235015227 phosphorylation site [posttranslational modification] 439235015228 intermolecular recognition site; other site 439235015229 Response regulator receiver domain; Region: Response_reg; pfam00072 439235015230 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 439235015231 active site 439235015232 phosphorylation site [posttranslational modification] 439235015233 intermolecular recognition site; other site 439235015234 dimerization interface [polypeptide binding]; other site 439235015235 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 439235015236 putative binding surface; other site 439235015237 active site 439235015238 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 439235015239 cyclase homology domain; Region: CHD; cd07302 439235015240 nucleotidyl binding site; other site 439235015241 metal binding site [ion binding]; metal-binding site 439235015242 dimer interface [polypeptide binding]; other site 439235015243 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 439235015244 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 439235015245 Protein of unknown function, DUF486; Region: DUF486; cl01236 439235015246 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235015247 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 439235015248 active site 439235015249 phosphorylation site [posttranslational modification] 439235015250 intermolecular recognition site; other site 439235015251 dimerization interface [polypeptide binding]; other site 439235015252 PAS domain S-box; Region: sensory_box; TIGR00229 439235015253 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 439235015254 putative active site [active] 439235015255 heme pocket [chemical binding]; other site 439235015256 PAS domain S-box; Region: sensory_box; TIGR00229 439235015257 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 439235015258 putative active site [active] 439235015259 heme pocket [chemical binding]; other site 439235015260 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 439235015261 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 439235015262 putative active site [active] 439235015263 heme pocket [chemical binding]; other site 439235015264 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 439235015265 dimer interface [polypeptide binding]; other site 439235015266 phosphorylation site [posttranslational modification] 439235015267 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 439235015268 ATP binding site [chemical binding]; other site 439235015269 Mg2+ binding site [ion binding]; other site 439235015270 G-X-G motif; other site 439235015271 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235015272 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 439235015273 active site 439235015274 phosphorylation site [posttranslational modification] 439235015275 intermolecular recognition site; other site 439235015276 dimerization interface [polypeptide binding]; other site 439235015277 Response regulator receiver domain; Region: Response_reg; pfam00072 439235015278 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 439235015279 active site 439235015280 phosphorylation site [posttranslational modification] 439235015281 intermolecular recognition site; other site 439235015282 dimerization interface [polypeptide binding]; other site 439235015283 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 439235015284 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 439235015285 dimer interface [polypeptide binding]; other site 439235015286 active site 439235015287 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 439235015288 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235015289 acyl-activating enzyme (AAE) consensus motif; other site 439235015290 active site 439235015291 AMP binding site [chemical binding]; other site 439235015292 CoA binding site [chemical binding]; other site 439235015293 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 439235015294 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235015295 CoA binding site [chemical binding]; other site 439235015296 SCP-2 sterol transfer family; Region: SCP2; pfam02036 439235015297 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235015298 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235015299 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 439235015300 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 439235015301 minor groove reading motif; other site 439235015302 helix-hairpin-helix signature motif; other site 439235015303 substrate binding pocket [chemical binding]; other site 439235015304 active site 439235015305 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 439235015306 active site 439235015307 8-oxo-dGMP binding site [chemical binding]; other site 439235015308 nudix motif; other site 439235015309 metal binding site [ion binding]; metal-binding site 439235015310 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 439235015311 Major Facilitator Superfamily; Region: MFS_1; pfam07690 439235015312 putative substrate translocation pore; other site 439235015313 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 439235015314 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 439235015315 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235015316 homodimer interface [polypeptide binding]; other site 439235015317 catalytic residue [active] 439235015318 Uncharacterized conserved protein [Function unknown]; Region: COG2353 439235015319 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 439235015320 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 439235015321 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 439235015322 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 439235015323 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 439235015324 inhibitor-cofactor binding pocket; inhibition site 439235015325 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235015326 catalytic residue [active] 439235015327 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 439235015328 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235015329 Zn2+ binding site [ion binding]; other site 439235015330 Mg2+ binding site [ion binding]; other site 439235015331 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 439235015332 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 439235015333 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 439235015334 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 439235015335 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH5; cd08189 439235015336 putative active site [active] 439235015337 metal binding site [ion binding]; metal-binding site 439235015338 Vps52 / Sac2 family; Region: Vps52; pfam04129 439235015339 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 439235015340 nudix motif; other site 439235015341 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 439235015342 anti sigma factor interaction site; other site 439235015343 regulatory phosphorylation site [posttranslational modification]; other site 439235015344 Response regulator receiver domain; Region: Response_reg; pfam00072 439235015345 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 439235015346 active site 439235015347 phosphorylation site [posttranslational modification] 439235015348 intermolecular recognition site; other site 439235015349 dimerization interface [polypeptide binding]; other site 439235015350 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 439235015351 putative binding surface; other site 439235015352 active site 439235015353 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 439235015354 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 439235015355 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 439235015356 ATP binding site [chemical binding]; other site 439235015357 Mg2+ binding site [ion binding]; other site 439235015358 G-X-G motif; other site 439235015359 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 439235015360 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 439235015361 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 439235015362 dimerization interface [polypeptide binding]; other site 439235015363 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 439235015364 PAS domain; Region: PAS_9; pfam13426 439235015365 putative active site [active] 439235015366 heme pocket [chemical binding]; other site 439235015367 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 439235015368 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 439235015369 dimer interface [polypeptide binding]; other site 439235015370 putative CheW interface [polypeptide binding]; other site 439235015371 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 439235015372 putative CheA interaction surface; other site 439235015373 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 439235015374 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 439235015375 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 439235015376 CheD chemotactic sensory transduction; Region: CheD; cl00810 439235015377 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 439235015378 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 439235015379 active site 439235015380 phosphorylation site [posttranslational modification] 439235015381 intermolecular recognition site; other site 439235015382 dimerization interface [polypeptide binding]; other site 439235015383 CheB methylesterase; Region: CheB_methylest; pfam01339 439235015384 Response regulator receiver domain; Region: Response_reg; pfam00072 439235015385 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 439235015386 active site 439235015387 phosphorylation site [posttranslational modification] 439235015388 intermolecular recognition site; other site 439235015389 dimerization interface [polypeptide binding]; other site 439235015390 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439235015391 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439235015392 metal binding site [ion binding]; metal-binding site 439235015393 active site 439235015394 I-site; other site 439235015395 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 439235015396 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 439235015397 ATP binding site [chemical binding]; other site 439235015398 Mg2+ binding site [ion binding]; other site 439235015399 G-X-G motif; other site 439235015400 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 439235015401 ATP binding site [chemical binding]; other site 439235015402 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 439235015403 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 439235015404 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 439235015405 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 439235015406 Sporulation related domain; Region: SPOR; pfam05036 439235015407 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 439235015408 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 439235015409 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 439235015410 active site 439235015411 HIGH motif; other site 439235015412 KMSK motif region; other site 439235015413 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 439235015414 tRNA binding surface [nucleotide binding]; other site 439235015415 anticodon binding site; other site 439235015416 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 439235015417 UbiA prenyltransferase family; Region: UbiA; pfam01040 439235015418 CAAX protease self-immunity; Region: Abi; pfam02517 439235015419 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 439235015420 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 439235015421 S-adenosylmethionine binding site [chemical binding]; other site 439235015422 Uncharacterized conserved protein [Function unknown]; Region: COG4933 439235015423 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 439235015424 RHS Repeat; Region: RHS_repeat; cl11982 439235015425 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 439235015426 RHS Repeat; Region: RHS_repeat; cl11982 439235015427 RHS Repeat; Region: RHS_repeat; pfam05593 439235015428 RHS Repeat; Region: RHS_repeat; pfam05593 439235015429 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 439235015430 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 439235015431 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 439235015432 catalytic triad [active] 439235015433 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 439235015434 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 439235015435 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 439235015436 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 439235015437 Ligand binding site [chemical binding]; other site 439235015438 Electron transfer flavoprotein domain; Region: ETF; pfam01012 439235015439 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 439235015440 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 439235015441 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 439235015442 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 439235015443 binding surface 439235015444 TPR motif; other site 439235015445 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 439235015446 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439235015447 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 439235015448 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439235015449 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 439235015450 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439235015451 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 439235015452 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 439235015453 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 439235015454 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 439235015455 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439235015456 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 439235015457 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439235015458 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 439235015459 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 439235015460 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 439235015461 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235015462 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 439235015463 CoenzymeA binding site [chemical binding]; other site 439235015464 subunit interaction site [polypeptide binding]; other site 439235015465 PHB binding site; other site 439235015466 Nif-specific regulatory protein; Region: nifA; TIGR01817 439235015467 GAF domain; Region: GAF_3; pfam13492 439235015468 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 439235015469 Walker A motif; other site 439235015470 ATP binding site [chemical binding]; other site 439235015471 Walker B motif; other site 439235015472 arginine finger; other site 439235015473 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 439235015474 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 439235015475 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235015476 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 439235015477 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439235015478 NAD(P) binding site [chemical binding]; other site 439235015479 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 439235015480 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_2; cd07805 439235015481 N- and C-terminal domain interface [polypeptide binding]; other site 439235015482 active site 439235015483 MgATP binding site [chemical binding]; other site 439235015484 catalytic site [active] 439235015485 metal binding site [ion binding]; metal-binding site 439235015486 xylulose binding site [chemical binding]; other site 439235015487 putative homodimer interface [polypeptide binding]; other site 439235015488 MT-A70; Region: MT-A70; cl01947 439235015489 Restriction alleviation protein Lar; Region: Lar_restr_allev; cl08047 439235015490 Coatomer gamma subunit appendage domain; Region: Gamma-COP; pfam08752 439235015491 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 439235015492 Peptidase M15; Region: Peptidase_M15_3; cl01194 439235015493 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 439235015494 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 439235015495 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 439235015496 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 439235015497 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 439235015498 TPR motif; other site 439235015499 Tetratricopeptide repeat; Region: TPR_16; pfam13432 439235015500 binding surface 439235015501 O-Antigen ligase; Region: Wzy_C; pfam04932 439235015502 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 439235015503 Protein of unknown function (DUF987); Region: DUF987; pfam06174 439235015504 replicative DNA helicase; Region: DnaB; TIGR00665 439235015505 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 439235015506 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 439235015507 Walker A motif; other site 439235015508 ATP binding site [chemical binding]; other site 439235015509 Walker B motif; other site 439235015510 DNA binding loops [nucleotide binding] 439235015511 Trp repressor protein; Region: Trp_repressor; cl17266 439235015512 ribbon-helix-helix domain containing protein; Region: PHA00617 439235015513 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 439235015514 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 439235015515 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 439235015516 dimer interface [polypeptide binding]; other site 439235015517 ssDNA binding site [nucleotide binding]; other site 439235015518 tetramer (dimer of dimers) interface [polypeptide binding]; other site 439235015519 Protein of unknown function (DUF1779); Region: DUF1779; pfam08680 439235015520 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 439235015521 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 439235015522 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 439235015523 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 439235015524 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 439235015525 substrate binding pocket [chemical binding]; other site 439235015526 dimer interface [polypeptide binding]; other site 439235015527 inhibitor binding site; inhibition site 439235015528 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 439235015529 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 439235015530 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 439235015531 G1 box; other site 439235015532 GTP/Mg2+ binding site [chemical binding]; other site 439235015533 Switch I region; other site 439235015534 G2 box; other site 439235015535 G3 box; other site 439235015536 Switch II region; other site 439235015537 G4 box; other site 439235015538 G5 box; other site 439235015539 Nucleoside recognition; Region: Gate; pfam07670 439235015540 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 439235015541 Nucleoside recognition; Region: Gate; pfam07670 439235015542 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 439235015543 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 439235015544 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 439235015545 Walker A motif; other site 439235015546 homodimer interface [polypeptide binding]; other site 439235015547 ATP binding site [chemical binding]; other site 439235015548 hydroxycobalamin binding site [chemical binding]; other site 439235015549 Walker B motif; other site 439235015550 Uncharacterized conserved protein [Function unknown]; Region: COG2006 439235015551 Domain of unknown function (DUF362); Region: DUF362; pfam04015 439235015552 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 439235015553 4Fe-4S binding domain; Region: Fer4; pfam00037 439235015554 Response regulator receiver domain; Region: Response_reg; pfam00072 439235015555 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 439235015556 active site 439235015557 phosphorylation site [posttranslational modification] 439235015558 intermolecular recognition site; other site 439235015559 dimerization interface [polypeptide binding]; other site 439235015560 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 439235015561 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 439235015562 ATP binding site [chemical binding]; other site 439235015563 Mg2+ binding site [ion binding]; other site 439235015564 G-X-G motif; other site 439235015565 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 439235015566 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 439235015567 putative acetyltransferase; Provisional; Region: PRK03624 439235015568 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439235015569 Coenzyme A binding pocket [chemical binding]; other site 439235015570 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 439235015571 NodB motif; other site 439235015572 putative active site [active] 439235015573 putative catalytic site [active] 439235015574 Zn binding site [ion binding]; other site 439235015575 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 439235015576 C-terminal peptidase (prc); Region: prc; TIGR00225 439235015577 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 439235015578 protein binding site [polypeptide binding]; other site 439235015579 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 439235015580 Catalytic dyad [active] 439235015581 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 439235015582 Modifier of rudimentary (Mod(r)) protein; Region: Mod_r; pfam07200 439235015583 Peptidase family M23; Region: Peptidase_M23; pfam01551 439235015584 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 439235015585 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 439235015586 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 439235015587 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235015588 Walker A/P-loop; other site 439235015589 ATP binding site [chemical binding]; other site 439235015590 Q-loop/lid; other site 439235015591 ABC transporter signature motif; other site 439235015592 Walker B; other site 439235015593 D-loop; other site 439235015594 H-loop/switch region; other site 439235015595 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 439235015596 active site 439235015597 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 439235015598 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 439235015599 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235015600 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235015601 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 439235015602 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 439235015603 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235015604 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 439235015605 acyl-activating enzyme (AAE) consensus motif; other site 439235015606 putative AMP binding site [chemical binding]; other site 439235015607 putative active site [active] 439235015608 putative CoA binding site [chemical binding]; other site 439235015609 Predicted methyltransferases [General function prediction only]; Region: COG0313 439235015610 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 439235015611 putative SAM binding site [chemical binding]; other site 439235015612 putative homodimer interface [polypeptide binding]; other site 439235015613 hypothetical protein; Reviewed; Region: PRK12497 439235015614 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 439235015615 RNA/DNA hybrid binding site [nucleotide binding]; other site 439235015616 active site 439235015617 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 439235015618 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 439235015619 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 439235015620 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 439235015621 RimM N-terminal domain; Region: RimM; pfam01782 439235015622 PRC-barrel domain; Region: PRC; pfam05239 439235015623 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 439235015624 hypothetical protein; Provisional; Region: PRK00468 439235015625 Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]; Region: RpsP; COG0228 439235015626 signal recognition particle protein; Provisional; Region: PRK10867 439235015627 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 439235015628 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 439235015629 P loop; other site 439235015630 GTP binding site [chemical binding]; other site 439235015631 Signal peptide binding domain; Region: SRP_SPB; pfam02978 439235015632 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 439235015633 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 439235015634 FeS/SAM binding site; other site 439235015635 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 439235015636 Domain of unknown function (DUF814); Region: DUF814; pfam05670 439235015637 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 439235015638 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 439235015639 minor groove reading motif; other site 439235015640 helix-hairpin-helix signature motif; other site 439235015641 substrate binding pocket [chemical binding]; other site 439235015642 active site 439235015643 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 439235015644 Family description; Region: VCBS; pfam13517 439235015645 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 439235015646 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 439235015647 dimer interface [polypeptide binding]; other site 439235015648 active site 439235015649 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 439235015650 catalytic residues [active] 439235015651 substrate binding site [chemical binding]; other site 439235015652 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 439235015653 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 439235015654 homotrimer interaction site [polypeptide binding]; other site 439235015655 putative active site [active] 439235015656 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 439235015657 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 439235015658 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 439235015659 active site 439235015660 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235015661 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235015662 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 439235015663 active site 439235015664 Zn binding site [ion binding]; other site 439235015665 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 439235015666 Response regulator receiver domain; Region: Response_reg; pfam00072 439235015667 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 439235015668 active site 439235015669 phosphorylation site [posttranslational modification] 439235015670 intermolecular recognition site; other site 439235015671 dimerization interface [polypeptide binding]; other site 439235015672 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 439235015673 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235015674 Zn2+ binding site [ion binding]; other site 439235015675 Mg2+ binding site [ion binding]; other site 439235015676 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 439235015677 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 439235015678 active site 439235015679 phosphorylation site [posttranslational modification] 439235015680 intermolecular recognition site; other site 439235015681 dimerization interface [polypeptide binding]; other site 439235015682 CheB methylesterase; Region: CheB_methylest; pfam01339 439235015683 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 439235015684 putative binding surface; other site 439235015685 active site 439235015686 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 439235015687 ATP binding site [chemical binding]; other site 439235015688 Mg2+ binding site [ion binding]; other site 439235015689 G-X-G motif; other site 439235015690 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 439235015691 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235015692 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 439235015693 active site 439235015694 phosphorylation site [posttranslational modification] 439235015695 intermolecular recognition site; other site 439235015696 dimerization interface [polypeptide binding]; other site 439235015697 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 439235015698 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 439235015699 dimerization interface [polypeptide binding]; other site 439235015700 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 439235015701 dimer interface [polypeptide binding]; other site 439235015702 putative CheW interface [polypeptide binding]; other site 439235015703 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 439235015704 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 439235015705 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 439235015706 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 439235015707 TPR motif; other site 439235015708 Tetratricopeptide repeat; Region: TPR_16; pfam13432 439235015709 binding surface 439235015710 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 439235015711 Tetratricopeptide repeat; Region: TPR_16; pfam13432 439235015712 TPR motif; other site 439235015713 binding surface 439235015714 TPR repeat; Region: TPR_11; pfam13414 439235015715 CheW-like domain; Region: CheW; pfam01584 439235015716 Killing trait; Region: RebB; pfam11747 439235015717 Killing trait; Region: RebB; pfam11747 439235015718 Killing trait; Region: RebB; pfam11747 439235015719 Killing trait; Region: RebB; pfam11747 439235015720 Killing trait; Region: RebB; pfam11747 439235015721 Killing trait; Region: RebB; pfam11747 439235015722 Killing trait; Region: RebB; pfam11747 439235015723 Killing trait; Region: RebB; pfam11747 439235015724 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 439235015725 CoA binding domain; Region: CoA_binding_2; pfam13380 439235015726 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 439235015727 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 439235015728 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 439235015729 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 439235015730 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235015731 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235015732 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235015733 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235015734 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 439235015735 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 439235015736 enoyl-CoA hydratase; Provisional; Region: PRK07799 439235015737 substrate binding site [chemical binding]; other site 439235015738 oxyanion hole (OAH) forming residues; other site 439235015739 trimer interface [polypeptide binding]; other site 439235015740 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 439235015741 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 439235015742 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 439235015743 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 439235015744 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 439235015745 dimer interface [polypeptide binding]; other site 439235015746 putative functional site; other site 439235015747 putative MPT binding site; other site 439235015748 PBP superfamily domain; Region: PBP_like; pfam12727 439235015749 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 439235015750 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 439235015751 dimer interface [polypeptide binding]; other site 439235015752 putative functional site; other site 439235015753 putative MPT binding site; other site 439235015754 Peptidase family M48; Region: Peptidase_M48; pfam01435 439235015755 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 439235015756 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 439235015757 dimer interface [polypeptide binding]; other site 439235015758 active site 439235015759 metal binding site [ion binding]; metal-binding site 439235015760 hypothetical protein; Provisional; Region: PRK09256 439235015761 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 439235015762 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 439235015763 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 439235015764 methionine sulfoxide reductase A; Provisional; Region: PRK14054 439235015765 methionine sulfoxide reductase B; Provisional; Region: PRK00222 439235015766 SelR domain; Region: SelR; pfam01641 439235015767 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 439235015768 human 17-beta-hydroxysteroid dehydrogenase XI-like, classical (c) SDRs; Region: 17beta-HSDXI-like_SDR_c; cd05339 439235015769 putative NAD(P) binding site [chemical binding]; other site 439235015770 homodimer interface [polypeptide binding]; other site 439235015771 active site 439235015772 substrate binding site [chemical binding]; other site 439235015773 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 439235015774 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 439235015775 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_family; cd02803 439235015776 active site 439235015777 FMN binding site [chemical binding]; other site 439235015778 substrate binding site [chemical binding]; other site 439235015779 putative catalytic residue [active] 439235015780 HEAT repeats; Region: HEAT_2; pfam13646 439235015781 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 439235015782 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439235015783 NAD(P) binding site [chemical binding]; other site 439235015784 active site 439235015785 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 439235015786 DHH family; Region: DHH; pfam01368 439235015787 DHHA1 domain; Region: DHHA1; pfam02272 439235015788 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235015789 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 439235015790 active site 439235015791 phosphorylation site [posttranslational modification] 439235015792 intermolecular recognition site; other site 439235015793 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 439235015794 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 439235015795 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 439235015796 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 439235015797 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235015798 putative active site [active] 439235015799 heme pocket [chemical binding]; other site 439235015800 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 439235015801 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235015802 putative active site [active] 439235015803 heme pocket [chemical binding]; other site 439235015804 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 439235015805 dimer interface [polypeptide binding]; other site 439235015806 phosphorylation site [posttranslational modification] 439235015807 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 439235015808 ATP binding site [chemical binding]; other site 439235015809 Mg2+ binding site [ion binding]; other site 439235015810 G-X-G motif; other site 439235015811 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 439235015812 active site 439235015813 phosphorylation site [posttranslational modification] 439235015814 intermolecular recognition site; other site 439235015815 dimerization interface [polypeptide binding]; other site 439235015816 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 439235015817 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 439235015818 cofactor binding site; other site 439235015819 DNA binding site [nucleotide binding] 439235015820 substrate interaction site [chemical binding]; other site 439235015821 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 439235015822 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 439235015823 additional DNA contacts [nucleotide binding]; other site 439235015824 mismatch recognition site; other site 439235015825 active site 439235015826 zinc binding site [ion binding]; other site 439235015827 DNA intercalation site [nucleotide binding]; other site 439235015828 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 439235015829 EamA-like transporter family; Region: EamA; pfam00892 439235015830 EamA-like transporter family; Region: EamA; pfam00892 439235015831 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 439235015832 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 439235015833 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 439235015834 putative active site [active] 439235015835 catalytic site [active] 439235015836 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 439235015837 putative active site [active] 439235015838 catalytic site [active] 439235015839 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 439235015840 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_family; cd02803 439235015841 active site 439235015842 FMN binding site [chemical binding]; other site 439235015843 substrate binding site [chemical binding]; other site 439235015844 putative catalytic residue [active] 439235015845 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439235015846 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 439235015847 dimerization interface [polypeptide binding]; other site 439235015848 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 439235015849 dimer interface [polypeptide binding]; other site 439235015850 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 439235015851 putative CheW interface [polypeptide binding]; other site 439235015852 Transcriptional regulators [Transcription]; Region: MarR; COG1846 439235015853 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 439235015854 putative Zn2+ binding site [ion binding]; other site 439235015855 putative DNA binding site [nucleotide binding]; other site 439235015856 Methyltransferase domain; Region: Methyltransf_31; pfam13847 439235015857 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 439235015858 S-adenosylmethionine binding site [chemical binding]; other site 439235015859 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 439235015860 Flavodoxin domain; Region: Flavodoxin_5; cl17428 439235015861 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 439235015862 4Fe-4S binding domain; Region: Fer4; cl02805 439235015863 Leucine rich repeat; Region: LRR_8; pfam13855 439235015864 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 439235015865 MgtE intracellular N domain; Region: MgtE_N; pfam03448 439235015866 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 439235015867 Divalent cation transporter; Region: MgtE; pfam01769 439235015868 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 439235015869 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 439235015870 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 439235015871 Low molecular weight phosphatase family; Region: LMWPc; cl00105 439235015872 active site 439235015873 Low molecular weight phosphatase family; Region: LMWPc; cd00115 439235015874 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 439235015875 active site 439235015876 Putative Fe-S cluster; Region: FeS; cl17515 439235015877 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 439235015878 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 439235015879 active site residue [active] 439235015880 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 439235015881 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 439235015882 catalytic residues [active] 439235015883 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 439235015884 Domain of unknown function (DUF2703); Region: DUF2703; pfam10865 439235015885 Predicted permeases [General function prediction only]; Region: COG0701 439235015886 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 439235015887 dimerization interface [polypeptide binding]; other site 439235015888 putative DNA binding site [nucleotide binding]; other site 439235015889 putative Zn2+ binding site [ion binding]; other site 439235015890 ribosome maturation protein RimP; Reviewed; Region: PRK00092 439235015891 Sm and related proteins; Region: Sm_like; cl00259 439235015892 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 439235015893 putative oligomer interface [polypeptide binding]; other site 439235015894 putative RNA binding site [nucleotide binding]; other site 439235015895 transcription termination factor NusA; Region: NusA; TIGR01953 439235015896 NusA N-terminal domain; Region: NusA_N; pfam08529 439235015897 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 439235015898 RNA binding site [nucleotide binding]; other site 439235015899 homodimer interface [polypeptide binding]; other site 439235015900 NusA-like KH domain; Region: KH_5; pfam13184 439235015901 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 439235015902 G-X-X-G motif; other site 439235015903 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 439235015904 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 439235015905 translation initiation factor IF-2; Region: IF-2; TIGR00487 439235015906 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 439235015907 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 439235015908 G1 box; other site 439235015909 putative GEF interaction site [polypeptide binding]; other site 439235015910 GTP/Mg2+ binding site [chemical binding]; other site 439235015911 Switch I region; other site 439235015912 G2 box; other site 439235015913 G3 box; other site 439235015914 Switch II region; other site 439235015915 G4 box; other site 439235015916 G5 box; other site 439235015917 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 439235015918 Translation-initiation factor 2; Region: IF-2; pfam11987 439235015919 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 439235015920 Protein of unknown function (DUF503); Region: DUF503; pfam04456 439235015921 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 439235015922 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 439235015923 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 439235015924 RNA binding site [nucleotide binding]; other site 439235015925 active site 439235015926 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 439235015927 16S/18S rRNA binding site [nucleotide binding]; other site 439235015928 S13e-L30e interaction site [polypeptide binding]; other site 439235015929 25S rRNA binding site [nucleotide binding]; other site 439235015930 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 439235015931 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 439235015932 RNase E interface [polypeptide binding]; other site 439235015933 trimer interface [polypeptide binding]; other site 439235015934 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 439235015935 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 439235015936 RNase E interface [polypeptide binding]; other site 439235015937 trimer interface [polypeptide binding]; other site 439235015938 active site 439235015939 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 439235015940 putative nucleic acid binding region [nucleotide binding]; other site 439235015941 G-X-X-G motif; other site 439235015942 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 439235015943 RNA binding site [nucleotide binding]; other site 439235015944 domain interface; other site 439235015945 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 439235015946 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 439235015947 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 439235015948 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 439235015949 trimer interface [polypeptide binding]; other site 439235015950 active site 439235015951 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 439235015952 lipase chaperone; Provisional; Region: PRK01294 439235015953 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 439235015954 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 439235015955 Lipase (class 2); Region: Lipase_2; pfam01674 439235015956 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 439235015957 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 439235015958 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 439235015959 Hpt domain; Region: Hpt; pfam01627 439235015960 putative binding surface; other site 439235015961 active site 439235015962 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 439235015963 Methyltransferase domain; Region: Methyltransf_23; pfam13489 439235015964 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 439235015965 S-adenosylmethionine binding site [chemical binding]; other site 439235015966 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 439235015967 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 439235015968 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 439235015969 FeS/SAM binding site; other site 439235015970 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 439235015971 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439235015972 DNA-binding site [nucleotide binding]; DNA binding site 439235015973 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 439235015974 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235015975 homodimer interface [polypeptide binding]; other site 439235015976 catalytic residue [active] 439235015977 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 439235015978 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 439235015979 catalytic residue [active] 439235015980 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 439235015981 aspartate racemase; Region: asp_race; TIGR00035 439235015982 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 439235015983 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 439235015984 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 439235015985 TM-ABC transporter signature motif; other site 439235015986 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 439235015987 TM-ABC transporter signature motif; other site 439235015988 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 439235015989 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 439235015990 Walker A/P-loop; other site 439235015991 ATP binding site [chemical binding]; other site 439235015992 Q-loop/lid; other site 439235015993 ABC transporter signature motif; other site 439235015994 Walker B; other site 439235015995 D-loop; other site 439235015996 H-loop/switch region; other site 439235015997 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 439235015998 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 439235015999 Walker A/P-loop; other site 439235016000 ATP binding site [chemical binding]; other site 439235016001 Q-loop/lid; other site 439235016002 ABC transporter signature motif; other site 439235016003 Walker B; other site 439235016004 D-loop; other site 439235016005 H-loop/switch region; other site 439235016006 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 439235016007 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria; Region: PBP1_SBP_like_2; cd06328 439235016008 putative ligand binding site [chemical binding]; other site 439235016009 classical (c) SDRs; Region: SDR_c; cd05233 439235016010 NAD(P) binding site [chemical binding]; other site 439235016011 active site 439235016012 PAS fold; Region: PAS; pfam00989 439235016013 PAS domain; Region: PAS; smart00091 439235016014 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 439235016015 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 439235016016 Walker A motif; other site 439235016017 ATP binding site [chemical binding]; other site 439235016018 Walker B motif; other site 439235016019 arginine finger; other site 439235016020 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235016021 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 439235016022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235016023 AAA domain; Region: AAA_21; pfam13304 439235016024 Walker A/P-loop; other site 439235016025 ATP binding site [chemical binding]; other site 439235016026 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 439235016027 active site 439235016028 metal binding site [ion binding]; metal-binding site 439235016029 Family description; Region: UvrD_C_2; pfam13538 439235016030 Transposase [DNA replication, recombination, and repair]; Region: COG5421 439235016031 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 439235016032 Mrr N-terminal domain; Region: Mrr_N; pfam14338 439235016033 AAA domain; Region: AAA_22; pfam13401 439235016034 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 439235016035 Walker A motif; other site 439235016036 ATP binding site [chemical binding]; other site 439235016037 Walker B motif; other site 439235016038 arginine finger; other site 439235016039 Winged helix-turn helix; Region: HTH_29; pfam13551 439235016040 Homeodomain-like domain; Region: HTH_32; pfam13565 439235016041 Integrase core domain; Region: rve; pfam00665 439235016042 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 439235016043 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 439235016044 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 439235016045 active site 439235016046 catalytic residues [active] 439235016047 DNA binding site [nucleotide binding] 439235016048 Int/Topo IB signature motif; other site 439235016049 Helix-turn-helix domain; Region: HTH_17; pfam12728 439235016050 AAA domain; Region: AAA_25; pfam13481 439235016051 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 439235016052 Walker A motif; other site 439235016053 ATP binding site [chemical binding]; other site 439235016054 Walker B motif; other site 439235016055 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 439235016056 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_a; cd09179 439235016057 putative active site [active] 439235016058 catalytic site [active] 439235016059 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 439235016060 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 439235016061 ATP binding site [chemical binding]; other site 439235016062 putative Mg++ binding site [ion binding]; other site 439235016063 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 439235016064 nucleotide binding region [chemical binding]; other site 439235016065 ATP-binding site [chemical binding]; other site 439235016066 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 439235016067 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235016068 Walker A/P-loop; other site 439235016069 ATP binding site [chemical binding]; other site 439235016070 dnd system-associated protein 4; Region: dnd_assoc_4; TIGR04062 439235016071 Domain of unknown function (DUF1832); Region: DUF1832; pfam08870 439235016072 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 439235016073 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235016074 Walker A/P-loop; other site 439235016075 ATP binding site [chemical binding]; other site 439235016076 hypothetical protein; Provisional; Region: PRK06850 439235016077 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 439235016078 Active Sites [active] 439235016079 DNA-sulfur modification-associated; Region: DndB; cl17621 439235016080 DGQHR domain; Region: DGQHR; TIGR03187 439235016081 Domain of unknown function(DUF2779); Region: DUF2779; pfam11074 439235016082 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 439235016083 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 439235016084 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 439235016085 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 439235016086 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 439235016087 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 439235016088 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 439235016089 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 439235016090 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 439235016091 Walker A motif; other site 439235016092 ATP binding site [chemical binding]; other site 439235016093 Walker B motif; other site 439235016094 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 439235016095 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 439235016096 Walker A motif; other site 439235016097 ATP binding site [chemical binding]; other site 439235016098 Walker B motif; other site 439235016099 arginine finger; other site 439235016100 Predicted transcriptional regulator [Transcription]; Region: COG2378 439235016101 Phage NinH protein; Region: Phage_NinH; pfam06322 439235016102 WYL domain; Region: WYL; pfam13280 439235016103 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 439235016104 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 439235016105 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 439235016106 FeS/SAM binding site; other site 439235016107 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 439235016108 Transglycosylase; Region: Transgly; pfam00912 439235016109 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 439235016110 RNA binding site [nucleotide binding]; other site 439235016111 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 439235016112 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 439235016113 type IV pilus assembly protein PilM; Region: pilM; TIGR01175 439235016114 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 439235016115 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 439235016116 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 439235016117 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 439235016118 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 439235016119 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 439235016120 Walker A motif; other site 439235016121 ATP binding site [chemical binding]; other site 439235016122 Walker B motif; other site 439235016123 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 439235016124 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 439235016125 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 439235016126 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 439235016127 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 439235016128 Walker A motif; other site 439235016129 ATP binding site [chemical binding]; other site 439235016130 Walker B motif; other site 439235016131 arginine finger; other site 439235016132 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235016133 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 439235016134 binding surface 439235016135 TPR motif; other site 439235016136 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 439235016137 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 439235016138 Ligand binding site; other site 439235016139 Putative Catalytic site; other site 439235016140 DXD motif; other site 439235016141 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 439235016142 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 439235016143 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 439235016144 DNA binding residues [nucleotide binding] 439235016145 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 439235016146 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 439235016147 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 439235016148 active site 439235016149 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 439235016150 Transposase [DNA replication, recombination, and repair]; Region: COG5421 439235016151 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 439235016152 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235016153 acyl-activating enzyme (AAE) consensus motif; other site 439235016154 AMP binding site [chemical binding]; other site 439235016155 active site 439235016156 CoA binding site [chemical binding]; other site 439235016157 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 439235016158 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 439235016159 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 439235016160 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 439235016161 HlyD family secretion protein; Region: HlyD_3; pfam13437 439235016162 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235016163 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235016164 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 439235016165 HSP70 interaction site [polypeptide binding]; other site 439235016166 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 439235016167 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 439235016168 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 439235016169 Cysteine-rich domain; Region: CCG; pfam02754 439235016170 Cysteine-rich domain; Region: CCG; pfam02754 439235016171 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 439235016172 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 439235016173 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235016174 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235016175 active site 439235016176 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 439235016177 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 439235016178 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 439235016179 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235016180 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235016181 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 439235016182 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_family; cd02803 439235016183 active site 439235016184 FMN binding site [chemical binding]; other site 439235016185 substrate binding site [chemical binding]; other site 439235016186 putative catalytic residue [active] 439235016187 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439235016188 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 439235016189 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 439235016190 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 439235016191 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235016192 active site 439235016193 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 439235016194 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 439235016195 Transposase; Region: DEDD_Tnp_IS110; pfam01548 439235016196 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 439235016197 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 439235016198 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 439235016199 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 439235016200 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 439235016201 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 439235016202 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 439235016203 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 439235016204 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 439235016205 dimer interface [polypeptide binding]; other site 439235016206 active site 439235016207 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 439235016208 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 439235016209 NAD(P) binding site [chemical binding]; other site 439235016210 active site 439235016211 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 439235016212 (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. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 439235016213 active site 439235016214 catalytic site [active] 439235016215 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 439235016216 PAS domain; Region: PAS_9; pfam13426 439235016217 putative active site [active] 439235016218 heme pocket [chemical binding]; other site 439235016219 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 439235016220 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 439235016221 Walker A motif; other site 439235016222 ATP binding site [chemical binding]; other site 439235016223 Walker B motif; other site 439235016224 arginine finger; other site 439235016225 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235016226 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 439235016227 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235016228 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 439235016229 acyl-activating enzyme (AAE) consensus motif; other site 439235016230 acyl-activating enzyme (AAE) consensus motif; other site 439235016231 putative AMP binding site [chemical binding]; other site 439235016232 putative active site [active] 439235016233 putative CoA binding site [chemical binding]; other site 439235016234 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 439235016235 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 439235016236 FtsX-like permease family; Region: FtsX; pfam02687 439235016237 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 439235016238 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 439235016239 Walker A/P-loop; other site 439235016240 ATP binding site [chemical binding]; other site 439235016241 Q-loop/lid; other site 439235016242 ABC transporter signature motif; other site 439235016243 Walker B; other site 439235016244 D-loop; other site 439235016245 H-loop/switch region; other site 439235016246 macrolide transporter subunit MacA; Provisional; Region: PRK11578 439235016247 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 439235016248 HlyD family secretion protein; Region: HlyD_3; pfam13437 439235016249 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 439235016250 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 439235016251 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 439235016252 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 439235016253 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 439235016254 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 439235016255 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 439235016256 S-adenosylmethionine binding site [chemical binding]; other site 439235016257 metallophosphoesterase, RPA4764 family; Region: RPA4764; TIGR03768 439235016258 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 439235016259 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 439235016260 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 439235016261 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 439235016262 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 439235016263 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG1810 439235016264 Thymidylate synthase; Region: dTMP_synthase; pfam02593 439235016265 classical (c) SDRs; Region: SDR_c; cd05233 439235016266 short chain dehydrogenase; Provisional; Region: PRK05650 439235016267 NAD(P) binding site [chemical binding]; other site 439235016268 active site 439235016269 Methyltransferase domain; Region: Methyltransf_31; pfam13847 439235016270 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 439235016271 S-adenosylmethionine binding site [chemical binding]; other site 439235016272 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 439235016273 aspartate racemase; Region: asp_race; TIGR00035 439235016274 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 439235016275 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 439235016276 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 439235016277 CoA-binding site [chemical binding]; other site 439235016278 ATP-binding [chemical binding]; other site 439235016279 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 439235016280 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 439235016281 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 439235016282 active site 439235016283 PHP-associated; Region: PHP_C; pfam13263 439235016284 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 439235016285 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235016286 acyl-activating enzyme (AAE) consensus motif; other site 439235016287 AMP binding site [chemical binding]; other site 439235016288 active site 439235016289 CoA binding site [chemical binding]; other site 439235016290 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 439235016291 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 439235016292 acyl-activating enzyme (AAE) consensus motif; other site 439235016293 putative AMP binding site [chemical binding]; other site 439235016294 putative active site [active] 439235016295 putative CoA binding site [chemical binding]; other site 439235016296 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235016297 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235016298 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 439235016299 AAA domain; Region: AAA_21; pfam13304 439235016300 Predicted transcriptional regulator [Transcription]; Region: COG3655 439235016301 salt bridge; other site 439235016302 non-specific DNA binding site [nucleotide binding]; other site 439235016303 sequence-specific DNA binding site [nucleotide binding]; other site 439235016304 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 439235016305 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 439235016306 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 439235016307 active site 439235016308 phosphorylation site [posttranslational modification] 439235016309 intermolecular recognition site; other site 439235016310 dimerization interface [polypeptide binding]; other site 439235016311 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235016312 Zn2+ binding site [ion binding]; other site 439235016313 Mg2+ binding site [ion binding]; other site 439235016314 DnaJ domain; Region: DnaJ; pfam00226 439235016315 HSP70 interaction site [polypeptide binding]; other site 439235016316 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 439235016317 O-Antigen ligase; Region: Wzy_C; pfam04932 439235016318 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235016319 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 439235016320 binding surface 439235016321 TPR motif; other site 439235016322 TPR repeat; Region: TPR_11; pfam13414 439235016323 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 439235016324 binding surface 439235016325 TPR motif; other site 439235016326 Cupin domain; Region: Cupin_2; pfam07883 439235016327 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 439235016328 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 439235016329 dehydrogenase, Rv0697 family; Region: Rv0697; TIGR03970 439235016330 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 439235016331 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235016332 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235016333 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 439235016334 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 439235016335 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 439235016336 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 439235016337 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 439235016338 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 439235016339 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 439235016340 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 439235016341 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 439235016342 DNA binding residues [nucleotide binding] 439235016343 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 439235016344 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 439235016345 putative ligand binding site [chemical binding]; other site 439235016346 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 439235016347 TM-ABC transporter signature motif; other site 439235016348 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 439235016349 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 439235016350 TM-ABC transporter signature motif; other site 439235016351 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 439235016352 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 439235016353 Walker A/P-loop; other site 439235016354 ATP binding site [chemical binding]; other site 439235016355 Q-loop/lid; other site 439235016356 ABC transporter signature motif; other site 439235016357 Walker B; other site 439235016358 D-loop; other site 439235016359 H-loop/switch region; other site 439235016360 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 439235016361 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 439235016362 Walker A/P-loop; other site 439235016363 ATP binding site [chemical binding]; other site 439235016364 Q-loop/lid; other site 439235016365 ABC transporter signature motif; other site 439235016366 Walker B; other site 439235016367 D-loop; other site 439235016368 H-loop/switch region; other site 439235016369 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235016370 4Fe-4S binding domain; Region: Fer4; pfam00037 439235016371 Predicted metal-binding protein (DUF2284); Region: DUF2284; pfam10050 439235016372 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 439235016373 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 439235016374 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 439235016375 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 439235016376 B12 binding site [chemical binding]; other site 439235016377 cobalt ligand [ion binding]; other site 439235016378 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 439235016379 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 439235016380 substrate binding pocket [chemical binding]; other site 439235016381 dimer interface [polypeptide binding]; other site 439235016382 inhibitor binding site; inhibition site 439235016383 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 439235016384 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 439235016385 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 439235016386 B12 binding site [chemical binding]; other site 439235016387 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 439235016388 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 439235016389 DNA-binding site [nucleotide binding]; DNA binding site 439235016390 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 439235016391 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 439235016392 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 439235016393 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 439235016394 shikimate kinase II; Reviewed; Region: aroL; cl17327 439235016395 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 439235016396 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 439235016397 Multisubunit Na+/H+ antiporter, MnhG subunit [Inorganic ion transport and metabolism]; Region: MnhG; COG1320 439235016398 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 439235016399 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 439235016400 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 439235016401 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 439235016402 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 439235016403 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 439235016404 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 439235016405 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439235016406 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 439235016407 ligand binding site [chemical binding]; other site 439235016408 flexible hinge region; other site 439235016409 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 439235016410 Predicted transcriptional regulator [Transcription]; Region: COG2378 439235016411 HTH domain; Region: HTH_11; pfam08279 439235016412 WYL domain; Region: WYL; pfam13280 439235016413 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 439235016414 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 439235016415 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 439235016416 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cl08044 439235016417 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 439235016418 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 439235016419 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 439235016420 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 439235016421 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cd09693 439235016422 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 439235016423 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cl08187 439235016424 putative acyltransferase; Provisional; Region: PRK05790 439235016425 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 439235016426 dimer interface [polypeptide binding]; other site 439235016427 active site 439235016428 Actin interacting protein 3; Region: AIP3; smart00806 439235016429 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 439235016430 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 439235016431 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 439235016432 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 439235016433 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 439235016434 nudix motif; other site 439235016435 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 439235016436 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 439235016437 catalytic triad [active] 439235016438 conserved cis-peptide bond; other site 439235016439 NAD+ synthase (glutamine-hydrolysing); Region: PLN02339 439235016440 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 439235016441 multimer interface [polypeptide binding]; other site 439235016442 active site 439235016443 catalytic triad [active] 439235016444 protein interface 1 [polypeptide binding]; other site 439235016445 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 439235016446 homodimer interface [polypeptide binding]; other site 439235016447 NAD binding pocket [chemical binding]; other site 439235016448 ATP binding pocket [chemical binding]; other site 439235016449 Mg binding site [ion binding]; other site 439235016450 active-site loop [active] 439235016451 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 439235016452 active site 439235016453 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 439235016454 FAD binding domain; Region: FAD_binding_4; pfam01565 439235016455 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 439235016456 FAD binding domain; Region: FAD_binding_4; pfam01565 439235016457 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 439235016458 Cysteine-rich domain; Region: CCG; pfam02754 439235016459 Cysteine-rich domain; Region: CCG; pfam02754 439235016460 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235016461 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235016462 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 439235016463 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 439235016464 CoA binding domain; Region: CoA_binding_2; pfam13380 439235016465 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 439235016466 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 439235016467 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 439235016468 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 439235016469 FeS/SAM binding site; other site 439235016470 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 439235016471 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 439235016472 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 439235016473 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 439235016474 dimerization interface [polypeptide binding]; other site 439235016475 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 439235016476 dimer interface [polypeptide binding]; other site 439235016477 putative CheW interface [polypeptide binding]; other site 439235016478 LysE type translocator; Region: LysE; cl00565 439235016479 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 439235016480 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 439235016481 Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]; Region: FrhG; COG1941 439235016482 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 439235016483 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 439235016484 coenzyme F420 hydrogenase, subunit beta; Region: frhB; TIGR03289 439235016485 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 439235016486 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 439235016487 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 439235016488 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439235016489 4Fe-4S binding domain; Region: Fer4; pfam00037 439235016490 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235016491 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 439235016492 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 439235016493 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 439235016494 4Fe-4S binding domain; Region: Fer4; pfam00037 439235016495 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235016496 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 439235016497 Endopeptidases belonging to F420-reducing hydrogenases group. These hydrogenases from methanogens are encoded by the fru, frc, or frh genes. Sequence comparison indicates that fruD and frcD gene products from Methanococcus voltae are similar to HycI...; Region: H2MP_F420-Reduc; cd06064 439235016498 nickel binding site [ion binding]; other site 439235016499 DEAD-like helicases superfamily; Region: DEXDc; smart00487 439235016500 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 439235016501 ATP binding site [chemical binding]; other site 439235016502 putative Mg++ binding site [ion binding]; other site 439235016503 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 439235016504 nucleotide binding region [chemical binding]; other site 439235016505 ATP-binding site [chemical binding]; other site 439235016506 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 439235016507 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 439235016508 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 439235016509 trimerization site [polypeptide binding]; other site 439235016510 active site 439235016511 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 439235016512 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 439235016513 putative ADP-ribose binding site [chemical binding]; other site 439235016514 putative active site [active] 439235016515 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 439235016516 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 439235016517 active site 439235016518 metal binding site [ion binding]; metal-binding site 439235016519 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 439235016520 dimer interface [polypeptide binding]; other site 439235016521 Citrate synthase; Region: Citrate_synt; pfam00285 439235016522 active site 439235016523 citrylCoA binding site [chemical binding]; other site 439235016524 NADH binding [chemical binding]; other site 439235016525 cationic pore residues; other site 439235016526 oxalacetate/citrate binding site [chemical binding]; other site 439235016527 coenzyme A binding site [chemical binding]; other site 439235016528 catalytic triad [active] 439235016529 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 439235016530 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 439235016531 4Fe-4S binding domain; Region: Fer4; pfam00037 439235016532 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235016533 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 439235016534 Mg binding site [ion binding]; other site 439235016535 nucleotide binding site [chemical binding]; other site 439235016536 putative protofilament interface [polypeptide binding]; other site 439235016537 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235016538 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235016539 Membrane protein of unknown function; Region: DUF360; pfam04020 439235016540 Predicted ATPases [General function prediction only]; Region: COG1106 439235016541 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235016542 Walker A/P-loop; other site 439235016543 ATP binding site [chemical binding]; other site 439235016544 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 439235016545 propionate/acetate kinase; Provisional; Region: PRK12379 439235016546 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 439235016547 butyrate kinase; Provisional; Region: PRK03011 439235016548 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 439235016549 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 439235016550 putative hexamer interface [polypeptide binding]; other site 439235016551 putative hexagonal pore; other site 439235016552 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 439235016553 putative hexamer interface [polypeptide binding]; other site 439235016554 putative hexagonal pore; other site 439235016555 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 439235016556 SLBB domain; Region: SLBB; pfam10531 439235016557 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 439235016558 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 439235016559 aldehyde dehydrogenase EutE; Provisional; Region: PRK15398 439235016560 NAD(P) binding site [chemical binding]; other site 439235016561 catalytic residues [active] 439235016562 Domain of unknown function (DUF336); Region: DUF336; pfam03928 439235016563 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 439235016564 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 439235016565 Hexamer/Pentamer interface [polypeptide binding]; other site 439235016566 central pore; other site 439235016567 ethanolamine utilization protein; Region: eut_hyp; TIGR02536 439235016568 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 439235016569 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 439235016570 nucleotide binding site [chemical binding]; other site 439235016571 Bacterial Micro-Compartment (BMC)-like domain 1 repeat 1; Region: BMC_like_1_repeat1; cd07051 439235016572 putative hexamer interface [polypeptide binding]; other site 439235016573 putative hexagonal pore; other site 439235016574 Bacterial Micro-Compartment (BMC)-like domain 1 repeat 2; Region: BMC_like_1_repeat2; cd07052 439235016575 putative hexamer interface [polypeptide binding]; other site 439235016576 putative hexagonal pore; other site 439235016577 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 439235016578 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 439235016579 Hexamer interface [polypeptide binding]; other site 439235016580 Hexagonal pore residue; other site 439235016581 Dehydratase medium subunit; Region: Dehydratase_MU; pfam02288 439235016582 Diol dehydratase reactivase ATPase-like domain; Region: DDR; pfam08841 439235016583 propanediol dehydratase small subunit; Provisional; Region: pduE; PRK15443 439235016584 propanediol dehydratase medium subunit; Provisional; Region: pduD; PRK15042 439235016585 Propanediol dehydratase, large subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduC; COG4909 439235016586 Dehydratase large subunit. This family contains the large (alpha) subunit of B12-dependent glycerol dehydratases (GDHs) and B12-dependent diol dehydratases (DDHs). GDH is isofunctional with DDH. These enzymes can each catalyze the conversion of 1; Region: Dehydratase_LU; cd03687 439235016587 alpha-alpha subunit/dimer interface [polypeptide binding]; other site 439235016588 alpha-beta subunit interface [polypeptide binding]; other site 439235016589 alpha-gamma subunit interface [polypeptide binding]; other site 439235016590 active site 439235016591 substrate and K+ binding site; other site 439235016592 K+ binding site [ion binding]; other site 439235016593 cobalamin binding site [chemical binding]; other site 439235016594 propanediol utilization protein PduB; Provisional; Region: PRK15415 439235016595 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 439235016596 putative hexamer interface [polypeptide binding]; other site 439235016597 putative hexagonal pore; other site 439235016598 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 439235016599 putative hexamer interface [polypeptide binding]; other site 439235016600 putative hexagonal pore; other site 439235016601 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 439235016602 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 439235016603 Hexamer interface [polypeptide binding]; other site 439235016604 Putative hexagonal pore residue; other site 439235016605 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 439235016606 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 439235016607 active site 439235016608 phosphorylation site [posttranslational modification] 439235016609 intermolecular recognition site; other site 439235016610 dimerization interface [polypeptide binding]; other site 439235016611 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 439235016612 DNA binding residues [nucleotide binding] 439235016613 dimerization interface [polypeptide binding]; other site 439235016614 Sensory domain found in PocR; Region: PocR; pfam10114 439235016615 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 439235016616 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 439235016617 Histidine kinase; Region: HisKA_3; pfam07730 439235016618 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 439235016619 ATP binding site [chemical binding]; other site 439235016620 Mg2+ binding site [ion binding]; other site 439235016621 G-X-G motif; other site 439235016622 Protein of unknown function; Region: DUF3658; pfam12395 439235016623 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 439235016624 TrkA-N domain; Region: TrkA_N; pfam02254 439235016625 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 439235016626 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 439235016627 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 439235016628 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 439235016629 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 439235016630 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 439235016631 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 439235016632 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439235016633 Coenzyme A binding pocket [chemical binding]; other site 439235016634 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 439235016635 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235016636 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235016637 acyl-activating enzyme (AAE) consensus motif; other site 439235016638 AMP binding site [chemical binding]; other site 439235016639 active site 439235016640 CoA binding site [chemical binding]; other site 439235016641 Uncharacterized conserved protein [Function unknown]; Region: COG1284 439235016642 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 439235016643 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 439235016644 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 439235016645 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 439235016646 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 439235016647 active site 439235016648 putative substrate binding pocket [chemical binding]; other site 439235016649 purine nucleoside phosphorylase; Provisional; Region: PRK08202 439235016650 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 439235016651 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_6; cd06340 439235016652 putative ligand binding site [chemical binding]; other site 439235016653 Cache domain; Region: Cache_1; pfam02743 439235016654 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 439235016655 dimerization interface [polypeptide binding]; other site 439235016656 PAS domain S-box; Region: sensory_box; TIGR00229 439235016657 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 439235016658 putative active site [active] 439235016659 heme pocket [chemical binding]; other site 439235016660 PAS fold; Region: PAS; pfam00989 439235016661 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235016662 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 439235016663 putative active site [active] 439235016664 heme pocket [chemical binding]; other site 439235016665 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 439235016666 dimer interface [polypeptide binding]; other site 439235016667 phosphorylation site [posttranslational modification] 439235016668 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 439235016669 ATP binding site [chemical binding]; other site 439235016670 Mg2+ binding site [ion binding]; other site 439235016671 G-X-G motif; other site 439235016672 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235016673 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235016674 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 439235016675 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 439235016676 PYR/PP interface [polypeptide binding]; other site 439235016677 dimer interface [polypeptide binding]; other site 439235016678 TPP binding site [chemical binding]; other site 439235016679 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 439235016680 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 439235016681 TPP-binding site; other site 439235016682 dimer interface [polypeptide binding]; other site 439235016683 short chain dehydrogenase; Provisional; Region: PRK06181 439235016684 classical (c) SDRs; Region: SDR_c; cd05233 439235016685 NAD(P) binding site [chemical binding]; other site 439235016686 active site 439235016687 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 439235016688 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 439235016689 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 439235016690 putative dimerization interface [polypeptide binding]; other site 439235016691 EamA-like transporter family; Region: EamA; pfam00892 439235016692 transaminase; Validated; Region: PRK07324 439235016693 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 439235016694 homodimer interface [polypeptide binding]; other site 439235016695 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235016696 catalytic residue [active] 439235016697 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235016698 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235016699 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235016700 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 439235016701 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235016702 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 439235016703 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 439235016704 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 439235016705 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 439235016706 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 439235016707 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 439235016708 FMN binding site [chemical binding]; other site 439235016709 substrate binding site [chemical binding]; other site 439235016710 putative catalytic residue [active] 439235016711 Rubredoxin [Energy production and conversion]; Region: COG1773 439235016712 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 439235016713 iron binding site [ion binding]; other site 439235016714 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 439235016715 Rubredoxin; Region: Rubredoxin; pfam00301 439235016716 iron binding site [ion binding]; other site 439235016717 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 439235016718 NMT1/THI5 like; Region: NMT1; pfam09084 439235016719 Cache domain; Region: Cache_1; pfam02743 439235016720 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 439235016721 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 439235016722 dimerization interface [polypeptide binding]; other site 439235016723 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 439235016724 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 439235016725 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 439235016726 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 439235016727 RhlG and related beta-ketoacyl reductases, classical (c) SDRs; Region: RhlG_SDR_c; cd08942 439235016728 NADP binding site [chemical binding]; other site 439235016729 active site 439235016730 von Willebrand factor type A domain; Region: VWA_2; pfam13519 439235016731 metal ion-dependent adhesion site (MIDAS); other site 439235016732 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 439235016733 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 439235016734 dimer interface [polypeptide binding]; other site 439235016735 active site 439235016736 heme binding site [chemical binding]; other site 439235016737 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 439235016738 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 439235016739 metal binding site 2 [ion binding]; metal-binding site 439235016740 putative DNA binding helix; other site 439235016741 metal binding site 1 [ion binding]; metal-binding site 439235016742 dimer interface [polypeptide binding]; other site 439235016743 structural Zn2+ binding site [ion binding]; other site 439235016744 Flagellin N-methylase; Region: FliB; cl00497 439235016745 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 439235016746 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 439235016747 Coenzyme A binding pocket [chemical binding]; other site 439235016748 Predicted amidohydrolase [General function prediction only]; Region: COG0388 439235016749 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 439235016750 putative active site [active] 439235016751 catalytic triad [active] 439235016752 putative dimer interface [polypeptide binding]; other site 439235016753 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 439235016754 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 439235016755 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235016756 Zn2+ binding site [ion binding]; other site 439235016757 Mg2+ binding site [ion binding]; other site 439235016758 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 439235016759 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 439235016760 active site 439235016761 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 439235016762 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 439235016763 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 439235016764 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 439235016765 dimer interface [polypeptide binding]; other site 439235016766 PYR/PP interface [polypeptide binding]; other site 439235016767 TPP binding site [chemical binding]; other site 439235016768 substrate binding site [chemical binding]; other site 439235016769 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 439235016770 TPP-binding site; other site 439235016771 4Fe-4S binding domain; Region: Fer4_6; pfam12837 439235016772 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 439235016773 active site 439235016774 dimerization interface [polypeptide binding]; other site 439235016775 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235016776 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 439235016777 active site 439235016778 catalytic residues [active] 439235016779 glutamate racemase; Provisional; Region: PRK00865 439235016780 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 439235016781 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 439235016782 Outer membrane efflux protein; Region: OEP; pfam02321 439235016783 Outer membrane efflux protein; Region: OEP; pfam02321 439235016784 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 439235016785 HlyD family secretion protein; Region: HlyD_3; pfam13437 439235016786 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 439235016787 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 439235016788 Walker A/P-loop; other site 439235016789 ATP binding site [chemical binding]; other site 439235016790 Q-loop/lid; other site 439235016791 ABC transporter signature motif; other site 439235016792 Walker B; other site 439235016793 D-loop; other site 439235016794 H-loop/switch region; other site 439235016795 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 439235016796 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 439235016797 Walker A/P-loop; other site 439235016798 ATP binding site [chemical binding]; other site 439235016799 Q-loop/lid; other site 439235016800 ABC transporter signature motif; other site 439235016801 Walker B; other site 439235016802 D-loop; other site 439235016803 H-loop/switch region; other site 439235016804 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 439235016805 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 439235016806 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 439235016807 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 439235016808 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 439235016809 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 439235016810 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235016811 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 439235016812 active site 439235016813 CoA binding site [chemical binding]; other site 439235016814 AMP binding site [chemical binding]; other site 439235016815 (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. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 439235016816 active site 439235016817 catalytic site [active] 439235016818 (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. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 439235016819 active site 439235016820 catalytic site [active] 439235016821 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 439235016822 ApbE family; Region: ApbE; pfam02424 439235016823 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 439235016824 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 439235016825 FAD binding pocket [chemical binding]; other site 439235016826 FAD binding motif [chemical binding]; other site 439235016827 phosphate binding motif [ion binding]; other site 439235016828 beta-alpha-beta structure motif; other site 439235016829 NAD binding pocket [chemical binding]; other site 439235016830 Iron coordination center [ion binding]; other site 439235016831 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 439235016832 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 439235016833 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 439235016834 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 439235016835 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 439235016836 4Fe-4S binding domain; Region: Fer4; pfam00037 439235016837 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235016838 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 439235016839 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235016840 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 439235016841 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 439235016842 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 439235016843 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 439235016844 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 439235016845 Cysteine-rich domain; Region: CCG; pfam02754 439235016846 Cysteine-rich domain; Region: CCG; pfam02754 439235016847 4Fe-4S binding domain; Region: Fer4; pfam00037 439235016848 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 439235016849 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 439235016850 putative dimer interface [polypeptide binding]; other site 439235016851 [2Fe-2S] cluster binding site [ion binding]; other site 439235016852 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 439235016853 PAS domain; Region: PAS_9; pfam13426 439235016854 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 439235016855 putative active site [active] 439235016856 heme pocket [chemical binding]; other site 439235016857 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 439235016858 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 439235016859 dimer interface [polypeptide binding]; other site 439235016860 phosphorylation site [posttranslational modification] 439235016861 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 439235016862 ATP binding site [chemical binding]; other site 439235016863 Mg2+ binding site [ion binding]; other site 439235016864 G-X-G motif; other site 439235016865 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 439235016866 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 439235016867 active site 439235016868 phosphorylation site [posttranslational modification] 439235016869 intermolecular recognition site; other site 439235016870 dimerization interface [polypeptide binding]; other site 439235016871 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 439235016872 Walker A motif; other site 439235016873 ATP binding site [chemical binding]; other site 439235016874 Walker B motif; other site 439235016875 arginine finger; other site 439235016876 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 439235016877 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; cl00083 439235016878 Transcriptional regulators [Transcription]; Region: MarR; COG1846 439235016879 MarR family; Region: MarR; pfam01047 439235016880 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 439235016881 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 439235016882 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 439235016883 hypothetical protein; Provisional; Region: PRK10621 439235016884 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 439235016885 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 439235016886 homodimer interaction site [polypeptide binding]; other site 439235016887 cofactor binding site; other site 439235016888 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 439235016889 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 439235016890 putative metal binding site [ion binding]; other site 439235016891 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 439235016892 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 439235016893 ABC-ATPase subunit interface; other site 439235016894 dimer interface [polypeptide binding]; other site 439235016895 putative PBP binding regions; other site 439235016896 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 439235016897 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 439235016898 Walker A/P-loop; other site 439235016899 ATP binding site [chemical binding]; other site 439235016900 Q-loop/lid; other site 439235016901 ABC transporter signature motif; other site 439235016902 Walker B; other site 439235016903 D-loop; other site 439235016904 H-loop/switch region; other site 439235016905 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 439235016906 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 439235016907 Predicted membrane protein [Function unknown]; Region: COG2364 439235016908 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 439235016909 MarR family; Region: MarR_2; pfam12802 439235016910 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 439235016911 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 439235016912 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 439235016913 Response regulator receiver domain; Region: Response_reg; pfam00072 439235016914 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 439235016915 active site 439235016916 phosphorylation site [posttranslational modification] 439235016917 intermolecular recognition site; other site 439235016918 dimerization interface [polypeptide binding]; other site 439235016919 Response regulator receiver domain; Region: Response_reg; pfam00072 439235016920 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 439235016921 active site 439235016922 phosphorylation site [posttranslational modification] 439235016923 intermolecular recognition site; other site 439235016924 dimerization interface [polypeptide binding]; other site 439235016925 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 439235016926 dimer interface [polypeptide binding]; other site 439235016927 [2Fe-2S] cluster binding site [ion binding]; other site 439235016928 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 439235016929 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 439235016930 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 439235016931 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235016932 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 439235016933 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 439235016934 catalytic loop [active] 439235016935 iron binding site [ion binding]; other site 439235016936 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 439235016937 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 439235016938 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 439235016939 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 439235016940 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 439235016941 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 439235016942 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 439235016943 Phosphotransferase enzyme family; Region: APH; pfam01636 439235016944 active site 439235016945 ATP binding site [chemical binding]; other site 439235016946 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 439235016947 Rubredoxin [Energy production and conversion]; Region: COG1773 439235016948 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 439235016949 iron binding site [ion binding]; other site 439235016950 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 439235016951 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 439235016952 inhibitor-cofactor binding pocket; inhibition site 439235016953 pyridoxal 5'-phosphate binding site [chemical binding]; other site 439235016954 catalytic residue [active] 439235016955 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 439235016956 purine monophosphate binding site [chemical binding]; other site 439235016957 dimer interface [polypeptide binding]; other site 439235016958 putative catalytic residues [active] 439235016959 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 439235016960 [Protein-PII] uridylyltransferase; Region: UTase_glnD; TIGR01693 439235016961 metal binding triad; other site 439235016962 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 439235016963 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 439235016964 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 439235016965 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 439235016966 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 439235016967 Nitrogen regulatory protein P-II; Region: P-II; smart00938 439235016968 glutamine synthetase, type I; Region: GlnA; TIGR00653 439235016969 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 439235016970 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 439235016971 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 439235016972 CheB methylesterase; Region: CheB_methylest; pfam01339 439235016973 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 439235016974 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 439235016975 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 439235016976 Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; Region: Cenp-F_leu_zip; pfam10473 439235016977 PAS domain; Region: PAS_9; pfam13426 439235016978 PAS domain S-box; Region: sensory_box; TIGR00229 439235016979 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 439235016980 putative active site [active] 439235016981 heme pocket [chemical binding]; other site 439235016982 PAS domain S-box; Region: sensory_box; TIGR00229 439235016983 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 439235016984 putative active site [active] 439235016985 heme pocket [chemical binding]; other site 439235016986 GAF domain; Region: GAF_2; pfam13185 439235016987 GAF domain; Region: GAF_3; pfam13492 439235016988 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 439235016989 S-adenosylmethionine binding site [chemical binding]; other site 439235016990 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 439235016991 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 439235016992 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 439235016993 prolyl-tRNA synthetase; Provisional; Region: PRK08661 439235016994 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_arch_euk; cd00778 439235016995 dimer interface [polypeptide binding]; other site 439235016996 motif 1; other site 439235016997 active site 439235016998 motif 2; other site 439235016999 motif 3; other site 439235017000 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 439235017001 anticodon binding site; other site 439235017002 zinc-binding site [ion binding]; other site 439235017003 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 439235017004 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 439235017005 Zn2+ binding site [ion binding]; other site 439235017006 Mg2+ binding site [ion binding]; other site 439235017007 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 439235017008 synthetase active site [active] 439235017009 NTP binding site [chemical binding]; other site 439235017010 metal binding site [ion binding]; metal-binding site 439235017011 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 439235017012 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 439235017013 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 439235017014 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 439235017015 putative active site [active] 439235017016 heme pocket [chemical binding]; other site 439235017017 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 439235017018 putative active site [active] 439235017019 heme pocket [chemical binding]; other site 439235017020 PAS domain S-box; Region: sensory_box; TIGR00229 439235017021 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 439235017022 putative active site [active] 439235017023 heme pocket [chemical binding]; other site 439235017024 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 439235017025 dimer interface [polypeptide binding]; other site 439235017026 phosphorylation site [posttranslational modification] 439235017027 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 439235017028 ATP binding site [chemical binding]; other site 439235017029 Mg2+ binding site [ion binding]; other site 439235017030 G-X-G motif; other site 439235017031 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 439235017032 active site 439235017033 phosphorylation site [posttranslational modification] 439235017034 intermolecular recognition site; other site 439235017035 dimerization interface [polypeptide binding]; other site 439235017036 Predicted membrane protein [Function unknown]; Region: COG3431 439235017037 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 439235017038 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 439235017039 active site 439235017040 PHP-associated; Region: PHP_C; pfam13263 439235017041 Transposase IS200 like; Region: Y1_Tnp; cl00848 439235017042 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 439235017043 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 439235017044 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 439235017045 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 439235017046 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 439235017047 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 439235017048 Ligand binding site; other site 439235017049 Putative Catalytic site; other site 439235017050 DXD motif; other site 439235017051 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 439235017052 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 439235017053 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 439235017054 FeS/SAM binding site; other site 439235017055 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 439235017056 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 439235017057 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 439235017058 FeS/SAM binding site; other site 439235017059 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 439235017060 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 439235017061 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 439235017062 FeS/SAM binding site; other site 439235017063 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 439235017064 B12 binding site [chemical binding]; other site 439235017065 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 439235017066 FeS/SAM binding site; other site 439235017067 archaeal radical SAM protein, PTO1314 family; Region: rSAM_PTO1314; TIGR03961 439235017068 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 439235017069 FeS/SAM binding site; other site 439235017070 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; COG0382 439235017071 UbiA prenyltransferase family; Region: UbiA; pfam01040 439235017072 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 439235017073 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 439235017074 dimer interface [polypeptide binding]; other site 439235017075 acyl-activating enzyme (AAE) consensus motif; other site 439235017076 putative active site [active] 439235017077 AMP binding site [chemical binding]; other site 439235017078 putative CoA binding site [chemical binding]; other site 439235017079 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 439235017080 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235017081 active site 439235017082 phosphorylation site [posttranslational modification] 439235017083 intermolecular recognition site; other site 439235017084 dimerization interface [polypeptide binding]; other site 439235017085 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_2; cd07819 439235017086 putative hydrophobic ligand binding site [chemical binding]; other site 439235017087 Protein of unknown function (DUF4079); Region: DUF4079; pfam13301 439235017088 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 439235017089 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 439235017090 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 439235017091 substrate binding site [chemical binding]; other site 439235017092 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 439235017093 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 439235017094 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 439235017095 P-loop; other site 439235017096 Magnesium ion binding site [ion binding]; other site 439235017097 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 439235017098 Magnesium ion binding site [ion binding]; other site 439235017099 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 439235017100 L-lactate permease; Region: Lactate_perm; cl00701 439235017101 Domain of unknown function (DUF4386); Region: DUF4386; pfam14329 439235017102 B12 binding domain; Region: B12-binding; pfam02310 439235017103 B12 binding site [chemical binding]; other site 439235017104 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 439235017105 Radical SAM superfamily; Region: Radical_SAM; pfam04055 439235017106 FeS/SAM binding site; other site 439235017107 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 439235017108 Tetratricopeptide repeat; Region: TPR_6; pfam13174 439235017109 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 439235017110 type II secretion system protein E; Region: type_II_gspE; TIGR02533 439235017111 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 439235017112 Walker A motif; other site 439235017113 ATP binding site [chemical binding]; other site 439235017114 Walker B motif; other site 439235017115 type II secretion system protein D; Region: type_II_gspD; TIGR02517 439235017116 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 439235017117 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 439235017118 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 439235017119 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 439235017120 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 439235017121 binding surface 439235017122 TPR motif; other site 439235017123 Tetratricopeptide repeat; Region: TPR_12; pfam13424 439235017124 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 439235017125 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 439235017126 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 439235017127 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 439235017128 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 439235017129 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 439235017130 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 439235017131 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 439235017132 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 439235017133 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 439235017134 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 439235017135 type II secretion system protein I; Region: gspI; TIGR01707 439235017136 Prokaryotic N-terminal methylation motif; Region: N_methyl; pfam07963 439235017137 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 439235017138 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 439235017139 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 439235017140 type II secretion system protein F; Region: GspF; TIGR02120 439235017141 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 439235017142 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 439235017143 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 439235017144 nudix motif; other site 439235017145 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 439235017146 active site 439235017147 zinc binding site [ion binding]; other site 439235017148 Na+ binding site [ion binding]; other site 439235017149 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 439235017150 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 439235017151 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 439235017152 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 439235017153 Penicillin amidase; Region: Penicil_amidase; pfam01804 439235017154 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 439235017155 active site 439235017156 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 439235017157 putative trimer interface [polypeptide binding]; other site 439235017158 putative CoA binding site [chemical binding]; other site 439235017159 4Fe-4S binding domain; Region: Fer4; pfam00037 439235017160 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 439235017161 4Fe-4S binding domain; Region: Fer4; pfam00037 439235017162 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 439235017163 G4 box; other site 439235017164 G5 box; other site 439235017165 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 439235017166 Ligand Binding Site [chemical binding]; other site 439235017167 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 439235017168 Ligand Binding Site [chemical binding]; other site 439235017169 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 439235017170 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 439235017171 putative active site [active] 439235017172 catalytic triad [active] 439235017173 putative dimer interface [polypeptide binding]; other site 439235017174 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 439235017175 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 439235017176 CoA binding domain; Region: CoA_binding_2; pfam13380 439235017177 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 439235017178 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235017179 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 439235017180 dimer interface [polypeptide binding]; other site 439235017181 phosphorylation site [posttranslational modification] 439235017182 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 439235017183 ATP binding site [chemical binding]; other site 439235017184 Mg2+ binding site [ion binding]; other site 439235017185 G-X-G motif; other site 439235017186 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 439235017187 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 439235017188 active site 439235017189 phosphorylation site [posttranslational modification] 439235017190 intermolecular recognition site; other site 439235017191 dimerization interface [polypeptide binding]; other site 439235017192 ribonuclease Z; Provisional; Region: PRK02126 439235017193 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 439235017194 DHH family; Region: DHH; pfam01368 439235017195 DHHA1 domain; Region: DHHA1; pfam02272 439235017196 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 439235017197 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 439235017198 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235017199 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 439235017200 active site 439235017201 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 439235017202 Ligand binding site [chemical binding]; other site 439235017203 Electron transfer flavoprotein domain; Region: ETF; pfam01012 439235017204 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 439235017205 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 439235017206 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 439235017207 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 439235017208 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 439235017209 non-specific DNA binding site [nucleotide binding]; other site 439235017210 salt bridge; other site 439235017211 sequence-specific DNA binding site [nucleotide binding]; other site 439235017212 Cupin domain; Region: Cupin_2; pfam07883 439235017213 PAS domain S-box; Region: sensory_box; TIGR00229 439235017214 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 439235017215 putative active site [active] 439235017216 heme pocket [chemical binding]; other site 439235017217 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 439235017218 DNA binding residues [nucleotide binding] 439235017219 PAS domain S-box; Region: sensory_box; TIGR00229 439235017220 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 439235017221 putative active site [active] 439235017222 heme pocket [chemical binding]; other site 439235017223 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 439235017224 DNA binding residues [nucleotide binding] 439235017225 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235017226 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235017227 Acetoacetate decarboxylase (ADC); Region: ADC; pfam06314 439235017228 putative oxidoreductase/HEAT repeat-containing protein; Provisional; Region: PRK13800 439235017229 HEAT repeats; Region: HEAT_2; pfam13646 439235017230 Radical SAM superfamily; Region: Radical_SAM; pfam04055 439235017231 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 439235017232 FeS/SAM binding site; other site 439235017233 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 439235017234 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 439235017235 Transposase; Region: DEDD_Tnp_IS110; pfam01548 439235017236 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 439235017237 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 439235017238 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 439235017239 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 439235017240 CoA binding domain; Region: CoA_binding_2; pfam13380 439235017241 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 439235017242 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 439235017243 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 439235017244 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 439235017245 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 439235017246 active site 439235017247 dimer interface [polypeptide binding]; other site 439235017248 CIMS - Cobalamine-independent methonine synthase, or MetE. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in...; Region: CIMS_like; cd03310 439235017249 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 439235017250 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 439235017251 Walker A motif; other site 439235017252 ATP binding site [chemical binding]; other site 439235017253 Walker B motif; other site 439235017254 arginine finger; other site 439235017255 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 439235017256 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 439235017257 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 439235017258 ligand binding site [chemical binding]; other site 439235017259 flexible hinge region; other site 439235017260 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 439235017261 non-specific DNA interactions [nucleotide binding]; other site 439235017262 DNA binding site [nucleotide binding] 439235017263 sequence specific DNA binding site [nucleotide binding]; other site 439235017264 putative cAMP binding site [chemical binding]; other site 439235017265 Protein of unknown function (DUF3187); Region: DUF3187; pfam11383 439235017266 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 439235017267 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 439235017268 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 439235017269 Transposase; Region: DEDD_Tnp_IS110; pfam01548 439235017270 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 439235017271 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 439235017272 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 439235017273 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 439235017274 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 439235017275 active site 439235017276 muropeptide transporter; Validated; Region: ampG; cl17669 439235017277 muropeptide transporter; Reviewed; Region: ampG; PRK11902 439235017278 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 439235017279 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 439235017280 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 439235017281 catalytic residue [active] 439235017282 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 439235017283 active site 439235017284 ADP/pyrophosphate binding site [chemical binding]; other site 439235017285 allosteric effector site; other site 439235017286 dimerization interface [polypeptide binding]; other site 439235017287 fructose-1,6-bisphosphate binding site; other site 439235017288 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 439235017289 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 439235017290 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 439235017291 S-adenosylmethionine binding site [chemical binding]; other site 439235017292 peptide chain release factor 1; Validated; Region: prfA; PRK00591 439235017293 This domain is found in peptide chain release factors; Region: PCRF; smart00937 439235017294 RF-1 domain; Region: RF-1; pfam00472 439235017295 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 439235017296 transcription termination factor Rho; Provisional; Region: rho; PRK09376 439235017297 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 439235017298 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 439235017299 RNA binding site [nucleotide binding]; other site 439235017300 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 439235017301 multimer interface [polypeptide binding]; other site 439235017302 Walker A motif; other site 439235017303 ATP binding site [chemical binding]; other site 439235017304 Walker B motif; other site 439235017305 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 439235017306 pyruvate phosphate dikinase; Provisional; Region: PRK09279 439235017307 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 439235017308 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 439235017309 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 439235017310 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 439235017311 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 439235017312 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 439235017313 catalytic residue [active] 439235017314 DHH family; Region: DHH; pfam01368 439235017315 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 439235017316 FOG: CBS domain [General function prediction only]; Region: COG0517 439235017317 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 439235017318 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 439235017319 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 439235017320 active site 439235017321 NTP binding site [chemical binding]; other site 439235017322 metal binding triad [ion binding]; metal-binding site 439235017323 Peptidase family M50; Region: Peptidase_M50; pfam02163 439235017324 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 439235017325 putative substrate binding region [chemical binding]; other site 439235017326 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 439235017327 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 439235017328 active site 439235017329 HIGH motif; other site 439235017330 dimer interface [polypeptide binding]; other site 439235017331 KMSKS motif; other site 439235017332 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 439235017333 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 439235017334 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 439235017335 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 439235017336 active site 439235017337 catalytic residues [active] 439235017338 DNA binding site [nucleotide binding] 439235017339 Int/Topo IB signature motif; other site 439235017340 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 439235017341 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 439235017342 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439235017343 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 439235017344 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 439235017345 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 439235017346 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 439235017347 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 439235017348 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 439235017349 Walker A motif; other site 439235017350 ATP binding site [chemical binding]; other site 439235017351 Walker B motif; other site 439235017352 Helix-turn-helix domain; Region: HTH_17; pfam12728 439235017353 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 439235017354 non-specific DNA binding site [nucleotide binding]; other site 439235017355 salt bridge; other site 439235017356 sequence-specific DNA binding site [nucleotide binding]; other site 439235017357 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 439235017358 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 439235017359 DNA binding residues [nucleotide binding] 439235017360 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 439235017361 enoyl-CoA hydratase; Provisional; Region: PRK06688 439235017362 substrate binding site [chemical binding]; other site 439235017363 oxyanion hole (OAH) forming residues; other site 439235017364 trimer interface [polypeptide binding]; other site 439235017365 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 439235017366 Dicarboxylate transport; Region: DctA-YdbH; cl14674 439235017367 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 439235017368 Transposase; Region: DEDD_Tnp_IS110; pfam01548 439235017369 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 439235017370 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 439235017371 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 439235017372 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 439235017373 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 439235017374 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 439235017375 putative active site; other site 439235017376 catalytic residue [active] 439235017377 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 439235017378 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 439235017379 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 439235017380 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 439235017381 Interdomain contacts; other site 439235017382 Cytokine receptor motif; other site 439235017383 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 439235017384 phosphoenolpyruvate synthase; Validated; Region: PRK06241 439235017385 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 439235017386 GAF domain; Region: GAF_2; pfam13185 439235017387 GAF domain; Region: GAF_3; pfam13492 439235017388 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 439235017389 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 439235017390 putative active site [active] 439235017391 heme pocket [chemical binding]; other site 439235017392 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 439235017393 dimer interface [polypeptide binding]; other site 439235017394 phosphorylation site [posttranslational modification] 439235017395 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 439235017396 ATP binding site [chemical binding]; other site 439235017397 Mg2+ binding site [ion binding]; other site 439235017398 G-X-G motif; other site 439235017399 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 439235017400 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 439235017401 active site 439235017402 phosphorylation site [posttranslational modification] 439235017403 intermolecular recognition site; other site 439235017404 dimerization interface [polypeptide binding]; other site 439235017405 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 439235017406 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 439235017407 TPR repeat; Region: TPR_11; pfam13414 439235017408 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 439235017409 binding surface 439235017410 TPR motif; other site 439235017411 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 439235017412 TPR repeat; Region: TPR_11; pfam13414 439235017413 binding surface 439235017414 TPR motif; other site 439235017415 TPR repeat; Region: TPR_11; pfam13414 439235017416 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 439235017417 binding surface 439235017418 TPR motif; other site 439235017419 TPR repeat; Region: TPR_11; pfam13414 439235017420 Tetratricopeptide repeat; Region: TPR_17; pfam13431 439235017421 TPR repeat; Region: TPR_11; pfam13414 439235017422 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 439235017423 binding surface 439235017424 TPR motif; other site 439235017425 TPR repeat; Region: TPR_11; pfam13414 439235017426 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 439235017427 binding surface 439235017428 TPR motif; other site 439235017429 TPR repeat; Region: TPR_11; pfam13414 439235017430 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 439235017431 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 439235017432 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 439235017433 Dicarboxylate transport; Region: DctA-YdbH; cl14674 439235017434 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 439235017435 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 439235017436 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 439235017437 active site 439235017438 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 439235017439 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 439235017440 DNA binding residues [nucleotide binding] 439235017441 putative dimer interface [polypeptide binding]; other site 439235017442 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 439235017443 putative active site pocket [active] 439235017444 cleavage site 439235017445 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 439235017446 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 439235017447 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 439235017448 Walker A motif; other site 439235017449 ATP binding site [chemical binding]; other site 439235017450 Walker B motif; other site 439235017451 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 439235017452 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 439235017453 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 439235017454 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 439235017455 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 439235017456 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 439235017457 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 439235017458 ligand binding site [chemical binding]; other site 439235017459 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 439235017460 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 439235017461 active site 439235017462 metal binding site [ion binding]; metal-binding site 439235017463 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 439235017464 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 439235017465 homodimer interaction site [polypeptide binding]; other site 439235017466 cofactor binding site; other site 439235017467 Predicted exonuclease [DNA replication, recombination, and repair]; Region: COG3359 439235017468 RNase_H superfamily; Region: RNase_H_2; pfam13482 439235017469 active site 439235017470 substrate binding site [chemical binding]; other site 439235017471 catalytic site [active] 439235017472 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 439235017473 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 439235017474 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 439235017475 metal binding site [ion binding]; metal-binding site 439235017476 active site 439235017477 I-site; other site 439235017478 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 439235017479 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 439235017480 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557