-- dump date 20120504_153847 -- class Genbank::misc_feature -- table misc_feature_note -- id note 323097000001 Transposase domain (DUF772); Region: DUF772; cl15789 323097000002 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 323097000003 Transposase domain (DUF772); Region: DUF772; cl15789 323097000004 Nitrogen regulatory protein P-II; Region: P-II; cl00412 323097000005 Nitrogen regulatory protein P-II; Region: P-II; smart00938 323097000006 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 323097000007 Helix-turn-helix domains; Region: HTH; cl00088 323097000008 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 323097000009 putative dimerization interface [polypeptide binding]; other site 323097000010 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 323097000011 metal binding site [ion binding]; metal-binding site 323097000012 active site 323097000013 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097000014 hypothetical protein; Provisional; Region: PRK08185 323097000015 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 323097000016 intersubunit interface [polypeptide binding]; other site 323097000017 active site 323097000018 zinc binding site [ion binding]; other site 323097000019 Na+ binding site [ion binding]; other site 323097000020 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 323097000021 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 323097000022 homodimer interface [polypeptide binding]; other site 323097000023 active site 323097000024 heterodimer interface [polypeptide binding]; other site 323097000025 catalytic residue [active] 323097000026 metal binding site [ion binding]; metal-binding site 323097000027 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 323097000028 multimerization interface [polypeptide binding]; other site 323097000029 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 323097000030 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 323097000031 Walker A motif; other site 323097000032 ATP binding site [chemical binding]; other site 323097000033 Walker B motif; other site 323097000034 arginine finger; other site 323097000035 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 323097000036 CRISPR-associated protein Cas9/Csn1, subtype II/NMEMI; Region: cas_Csn1; TIGR01865 323097000037 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 323097000038 HipA-like N-terminal domain; Region: HipA_N; pfam07805 323097000039 HipA-like C-terminal domain; Region: HipA_C; pfam07804 323097000040 Transposase, Mutator family; Region: Transposase_mut; pfam00872 323097000041 MULE transposase domain; Region: MULE; pfam10551 323097000042 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 323097000043 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 323097000044 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 323097000045 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323097000046 Coenzyme A binding pocket [chemical binding]; other site 323097000047 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 323097000048 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 323097000049 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 323097000050 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 323097000051 Ligand Binding Site [chemical binding]; other site 323097000052 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 323097000053 Ferritin-like domain; Region: Ferritin; pfam00210 323097000054 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 323097000055 dimerization interface [polypeptide binding]; other site 323097000056 DPS ferroxidase diiron center [ion binding]; other site 323097000057 ion pore; other site 323097000058 aconitate hydratase; Validated; Region: PRK09277 323097000059 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 323097000060 substrate binding site [chemical binding]; other site 323097000061 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 323097000062 ligand binding site [chemical binding]; other site 323097000063 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 323097000064 substrate binding site [chemical binding]; other site 323097000065 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323097000066 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 323097000067 active site 323097000068 metal binding site [ion binding]; metal-binding site 323097000069 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 323097000070 Moco binding site; other site 323097000071 metal coordination site [ion binding]; other site 323097000072 dimerization interface [polypeptide binding]; other site 323097000073 Helix-turn-helix domains; Region: HTH; cl00088 323097000074 Winged helix-turn helix; Region: HTH_29; pfam13551 323097000075 Helix-turn-helix domains; Region: HTH; cl00088 323097000076 Integrase core domain; Region: rve; cl01316 323097000077 Transposase domain (DUF772); Region: DUF772; cl15789 323097000078 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 323097000079 Helix-turn-helix domains; Region: HTH; cl00088 323097000080 Winged helix-turn helix; Region: HTH_29; pfam13551 323097000081 Helix-turn-helix domains; Region: HTH; cl00088 323097000082 Integrase core domain; Region: rve; cl01316 323097000083 Transposase domain (DUF772); Region: DUF772; cl15789 323097000084 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097000085 Transposase domain (DUF772); Region: DUF772; cl15789 323097000086 Protein of unknown function DUF72; Region: DUF72; cl00777 323097000087 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 323097000088 Phospholipid methyltransferase; Region: PEMT; cl00763 323097000089 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 323097000090 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 323097000091 malonyl-CoA binding site [chemical binding]; other site 323097000092 dimer interface [polypeptide binding]; other site 323097000093 active site 323097000094 product binding site; other site 323097000095 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 323097000096 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 323097000097 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 323097000098 Cation efflux family; Region: Cation_efflux; cl00316 323097000099 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 323097000100 Helix-turn-helix domains; Region: HTH; cl00088 323097000101 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 323097000102 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097000103 Transposase domain (DUF772); Region: DUF772; cl15789 323097000104 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 323097000105 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 323097000106 putative active site [active] 323097000107 putative NTP binding site [chemical binding]; other site 323097000108 putative nucleic acid binding site [nucleotide binding]; other site 323097000109 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 323097000110 Transposase domain (DUF772); Region: DUF772; cl15789 323097000111 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097000112 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097000113 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 323097000114 Helix-turn-helix domains; Region: HTH; cl00088 323097000115 Winged helix-turn helix; Region: HTH_29; pfam13551 323097000116 Helix-turn-helix domains; Region: HTH; cl00088 323097000117 Integrase core domain; Region: rve; cl01316 323097000118 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097000119 Low affinity iron permease; Region: Iron_permease; cl12096 323097000120 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 323097000121 Helix-turn-helix domains; Region: HTH; cl00088 323097000122 Winged helix-turn helix; Region: HTH_29; pfam13551 323097000123 Helix-turn-helix domains; Region: HTH; cl00088 323097000124 Integrase core domain; Region: rve; cl01316 323097000125 Helix-turn-helix domains; Region: HTH; cl00088 323097000126 Winged helix-turn helix; Region: HTH_29; pfam13551 323097000127 Helix-turn-helix domains; Region: HTH; cl00088 323097000128 Integrase core domain; Region: rve; cl01316 323097000129 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097000130 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097000131 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 323097000132 Helix-turn-helix domains; Region: HTH; cl00088 323097000133 putative transposase OrfB; Reviewed; Region: PHA02517 323097000134 Helix-turn-helix domains; Region: HTH; cl00088 323097000135 Integrase core domain; Region: rve; cl01316 323097000136 Integrase core domain; Region: rve_3; cl15866 323097000137 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323097000138 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097000139 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097000140 Helix-turn-helix domains; Region: HTH; cl00088 323097000141 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 323097000142 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 323097000143 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 323097000144 GAF domain; Region: GAF_2; pfam13185 323097000145 GAF domain; Region: GAF; cl15785 323097000146 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 323097000147 Uncharacterized protein conserved in bacteria (DUF2171); Region: DUF2171; cl01558 323097000148 Transposase domain (DUF772); Region: DUF772; cl15789 323097000149 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 323097000150 Transposase domain (DUF772); Region: DUF772; cl15789 323097000151 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 323097000152 CsbD-like; Region: CsbD; cl15799 323097000153 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 323097000154 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097000155 active site 323097000156 phosphorylation site [posttranslational modification] 323097000157 intermolecular recognition site; other site 323097000158 dimerization interface [polypeptide binding]; other site 323097000159 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 323097000160 dinuclear metal binding motif [ion binding]; other site 323097000161 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 323097000162 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097000163 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097000164 large terminase protein; Provisional; Region: 17; PHA02533 323097000165 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 323097000166 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 323097000167 Helix-turn-helix domains; Region: HTH; cl00088 323097000168 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 323097000169 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 323097000170 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 323097000171 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 323097000172 short chain dehydrogenase; Provisional; Region: PRK07109 323097000173 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 323097000174 putative NAD(P) binding site [chemical binding]; other site 323097000175 active site 323097000176 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 323097000177 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 323097000178 Subunit I/III interface [polypeptide binding]; other site 323097000179 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 323097000180 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 323097000181 D-pathway; other site 323097000182 Low-spin heme binding site [chemical binding]; other site 323097000183 Putative water exit pathway; other site 323097000184 Binuclear center (active site) [active] 323097000185 K-pathway; other site 323097000186 Putative proton exit pathway; other site 323097000187 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 323097000188 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 323097000189 Cytochrome c; Region: Cytochrom_C; cl11414 323097000190 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 323097000191 Cu(I) binding site [ion binding]; other site 323097000192 Cytochrome c; Region: Cytochrom_C; cl11414 323097000193 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 323097000194 Polysulphide reductase, NrfD; Region: NrfD; cl01295 323097000195 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 323097000196 molybdopterin cofactor binding site; other site 323097000197 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 323097000198 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 323097000199 4Fe-4S binding domain; Region: Fer4; cl02805 323097000200 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 323097000201 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 323097000202 heme-binding residues [chemical binding]; other site 323097000203 Anabaena sensory rhodopsin transducer; Region: ASRT; cl01751 323097000204 thiamine pyrophosphate protein; Provisional; Region: PRK08273 323097000205 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 323097000206 PYR/PP interface [polypeptide binding]; other site 323097000207 tetramer interface [polypeptide binding]; other site 323097000208 dimer interface [polypeptide binding]; other site 323097000209 TPP binding site [chemical binding]; other site 323097000210 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 323097000211 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 323097000212 TPP-binding site [chemical binding]; other site 323097000213 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 3. 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...; Region: MR_like_3; cd03328 323097000214 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 323097000215 putative active site pocket [active] 323097000216 putative metal binding site [ion binding]; other site 323097000217 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 323097000218 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 323097000219 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097000220 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 323097000221 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 323097000222 Protein of unknown function DUF72; Region: DUF72; cl00777 323097000223 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 323097000224 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 323097000225 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 323097000226 Conjugal transfer protein TraD; Region: TraD; cl05753 323097000227 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 323097000228 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 323097000229 MASE1; Region: MASE1; pfam05231 323097000230 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 323097000231 Histidine kinase; Region: HisKA_2; cl06527 323097000232 Helix-turn-helix domains; Region: HTH; cl00088 323097000233 putative transposase OrfB; Reviewed; Region: PHA02517 323097000234 HTH-like domain; Region: HTH_21; pfam13276 323097000235 Integrase core domain; Region: rve; cl01316 323097000236 Integrase core domain; Region: rve_3; cl15866 323097000237 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 323097000238 DEAD-like helicases superfamily; Region: DEXDc; smart00487 323097000239 ATP binding site [chemical binding]; other site 323097000240 Mg++ binding site [ion binding]; other site 323097000241 motif III; other site 323097000242 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 323097000243 nucleotide binding region [chemical binding]; other site 323097000244 Transposase domain (DUF772); Region: DUF772; cl15789 323097000245 Transposase domain (DUF772); Region: DUF772; cl15789 323097000246 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 323097000247 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 323097000248 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 323097000249 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 323097000250 DXD motif; other site 323097000251 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 323097000252 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097000253 Helix-turn-helix domains; Region: HTH; cl00088 323097000254 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 323097000255 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 323097000256 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097000257 Cupin domain; Region: Cupin_2; cl09118 323097000258 Protein of unknown function (DUF3147); Region: DUF3147; pfam11345 323097000259 Helix-turn-helix domains; Region: HTH; cl00088 323097000260 Winged helix-turn helix; Region: HTH_29; pfam13551 323097000261 Helix-turn-helix domains; Region: HTH; cl00088 323097000262 Integrase core domain; Region: rve; cl01316 323097000263 Helix-turn-helix domains; Region: HTH; cl00088 323097000264 Winged helix-turn helix; Region: HTH_29; pfam13551 323097000265 Helix-turn-helix domains; Region: HTH; cl00088 323097000266 Integrase core domain; Region: rve; cl01316 323097000267 calcium/proton exchanger (cax); Region: cax; TIGR00378 323097000268 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 323097000269 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 323097000270 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 323097000271 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 323097000272 Cytochrome c; Region: Cytochrom_C; cl11414 323097000273 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097000274 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 323097000275 Transposase domain (DUF772); Region: DUF772; cl15789 323097000276 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 323097000277 Transposase domain (DUF772); Region: DUF772; cl15789 323097000278 Helix-turn-helix domains; Region: HTH; cl00088 323097000279 Winged helix-turn helix; Region: HTH_29; pfam13551 323097000280 Helix-turn-helix domains; Region: HTH; cl00088 323097000281 Integrase core domain; Region: rve; cl01316 323097000282 Transposase domain (DUF772); Region: DUF772; cl15789 323097000283 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097000284 Transposase domain (DUF772); Region: DUF772; cl15789 323097000285 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 323097000286 large terminase protein; Provisional; Region: 17; PHA02533 323097000287 Transposase domain (DUF772); Region: DUF772; cl15789 323097000288 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 323097000289 Transposase domain (DUF772); Region: DUF772; cl15789 323097000290 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 323097000291 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 323097000292 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 323097000293 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 323097000294 P-loop; other site 323097000295 Magnesium ion binding site [ion binding]; other site 323097000296 conjugal transfer protein TraV; Provisional; Region: PRK13733 323097000297 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 323097000298 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 323097000299 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 323097000300 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 323097000301 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 323097000302 dimer interface [polypeptide binding]; other site 323097000303 ssDNA binding site [nucleotide binding]; other site 323097000304 tetramer (dimer of dimers) interface [polypeptide binding]; other site 323097000305 replication initiation protein RepC; Provisional; Region: PRK13824 323097000306 Helix-turn-helix domains; Region: HTH; cl00088 323097000307 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 323097000308 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 323097000309 ParB-like nuclease domain; Region: ParBc; cl02129 323097000310 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 323097000311 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 323097000312 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 323097000313 P-loop; other site 323097000314 Magnesium ion binding site [ion binding]; other site 323097000315 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 323097000316 Magnesium ion binding site [ion binding]; other site 323097000317 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 323097000318 oligomeric interface; other site 323097000319 putative active site [active] 323097000320 homodimer interface [polypeptide binding]; other site 323097000321 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 323097000322 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097000323 AAA domain; Region: AAA_22; pfam13401 323097000324 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 323097000325 Mu DNA binding, I gamma subdomain; Region: HTH_Tnp_Mu_2; pfam09039 323097000326 Integrase core domain; Region: rve; cl01316 323097000327 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 323097000328 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 323097000329 HTH DNA binding domain; Region: HTH_13; pfam11972 323097000330 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 323097000331 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 323097000332 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097000333 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097000334 Transposase, Mutator family; Region: Transposase_mut; pfam00872 323097000335 MULE transposase domain; Region: MULE; pfam10551 323097000336 Transposase domain (DUF772); Region: DUF772; cl15789 323097000337 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 323097000338 heme-binding site [chemical binding]; other site 323097000339 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 323097000340 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cd00322 323097000341 phosphate binding motif [ion binding]; other site 323097000342 beta-alpha-beta structure motif; other site 323097000343 NAD binding pocket [chemical binding]; other site 323097000344 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 323097000345 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 323097000346 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 323097000347 putative dimer interface [polypeptide binding]; other site 323097000348 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 323097000349 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 323097000350 putative dimer interface [polypeptide binding]; other site 323097000351 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 323097000352 putative active site [active] 323097000353 Rv0623-like transcription factor; Region: PSK_trans_fac; cl01834 323097000354 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097000355 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097000356 NADH:ubiquinone oxidoreductase subunit 5 (chain L)/Multisubunit Na+/H+ antiporter, MnhA subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NuoL; COG1009 323097000357 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 323097000358 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 323097000359 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 323097000360 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 323097000361 Nitrogen regulatory protein P-II; Region: P-II; cl00412 323097000362 NADH:ubiquinone oxidoreductase subunit 5 (chain L)/Multisubunit Na+/H+ antiporter, MnhA subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NuoL; COG1009 323097000363 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 323097000364 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 323097000365 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 323097000366 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 323097000367 Nitrogen regulatory protein P-II; Region: P-II; cl00412 323097000368 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 323097000369 Helix-turn-helix domains; Region: HTH; cl00088 323097000370 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 323097000371 putative dimerization interface [polypeptide binding]; other site 323097000372 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 323097000373 Ribulose bisphosphate carboxylase large chain; Region: RuBisCO_large; cl08232 323097000374 dimer interface [polypeptide binding]; other site 323097000375 catalytic residue [active] 323097000376 metal binding site [ion binding]; metal-binding site 323097000377 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 323097000378 multimerization interface [polypeptide binding]; other site 323097000379 Carboxysome shell peptide mid-region; Region: CsoS2_M; pfam12288 323097000380 Carboxysome Shell Carbonic Anhydrase; Region: CsoSCA; cl07510 323097000381 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 323097000382 Hexamer/Pentamer interface [polypeptide binding]; other site 323097000383 central pore; other site 323097000384 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 323097000385 Hexamer/Pentamer interface [polypeptide binding]; other site 323097000386 central pore; other site 323097000387 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 323097000388 Hexamer interface [polypeptide binding]; other site 323097000389 Hexagonal pore residue; other site 323097000390 Carboxysome Shell 1 (CsoS1); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CsoS1; cd07058 323097000391 Hexamer interface [polypeptide binding]; other site 323097000392 Hexagonal pore residue; other site 323097000393 Hexagonal pore; other site 323097000394 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cd00488 323097000395 aromatic arch; other site 323097000396 DCoH dimer interaction site [polypeptide binding]; other site 323097000397 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 323097000398 DCoH tetramer interaction site [polypeptide binding]; other site 323097000399 substrate binding site [chemical binding]; other site 323097000400 ParA-like protein; Provisional; Region: PHA02518 323097000401 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 323097000402 P-loop; other site 323097000403 Magnesium ion binding site [ion binding]; other site 323097000404 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097000405 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 323097000406 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 323097000407 Bacterial Micro-Compartment (BMC)-like domain 1 repeat 1; Region: BMC_like_1_repeat1; cd07051 323097000408 putative hexamer interface [polypeptide binding]; other site 323097000409 putative hexagonal pore; other site 323097000410 Bacterial Micro-Compartment (BMC)-like domain 1 repeat 2; Region: BMC_like_1_repeat2; cd07052 323097000411 putative hexamer interface [polypeptide binding]; other site 323097000412 putative hexagonal pore; other site 323097000413 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 323097000414 HTH-like domain; Region: HTH_21; pfam13276 323097000415 Helix-turn-helix domains; Region: HTH; cl00088 323097000416 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; cl15754 323097000417 S-adenosylmethionine binding site [chemical binding]; other site 323097000418 FixH; Region: FixH; cl01254 323097000419 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 323097000420 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097000421 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 323097000422 Cytochrome c; Region: Cytochrom_C; cl11414 323097000423 RNA polymerase sigma factor; Provisional; Region: PRK12539 323097000424 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323097000425 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 323097000426 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 323097000427 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 323097000428 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 323097000429 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 323097000430 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; cl11420 323097000431 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 323097000432 putative phosphoketolase; Provisional; Region: PRK05261 323097000433 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 323097000434 TPP-binding site; other site 323097000435 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 323097000436 XFP C-terminal domain; Region: XFP_C; pfam09363 323097000437 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 323097000438 active site 323097000439 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 323097000440 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 323097000441 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 323097000442 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 323097000443 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 323097000444 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 323097000445 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 323097000446 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 323097000447 glucokinase, proteobacterial type; Region: glk; TIGR00749 323097000448 Acetokinase family; Region: Acetate_kinase; cl01029 323097000449 propionate/acetate kinase; Provisional; Region: PRK12379 323097000450 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 323097000451 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 323097000452 transcriptional regulator FixK; Provisional; Region: fixK; PRK09391 323097000453 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 323097000454 ligand binding site [chemical binding]; other site 323097000455 flexible hinge region; other site 323097000456 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 323097000457 putative switch regulator; other site 323097000458 non-specific DNA interactions [nucleotide binding]; other site 323097000459 DNA binding site [nucleotide binding] 323097000460 sequence specific DNA binding site [nucleotide binding]; other site 323097000461 putative cAMP binding site [chemical binding]; other site 323097000462 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 323097000463 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 323097000464 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 323097000465 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 323097000466 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 323097000467 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 323097000468 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 323097000469 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 323097000470 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; cl15754 323097000471 S-adenosylmethionine binding site [chemical binding]; other site 323097000472 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 323097000473 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 323097000474 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 323097000475 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 323097000476 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 323097000477 putative homotetramer interface [polypeptide binding]; other site 323097000478 putative homodimer interface [polypeptide binding]; other site 323097000479 putative allosteric switch controlling residues; other site 323097000480 putative metal binding site [ion binding]; other site 323097000481 putative homodimer-homodimer interface [polypeptide binding]; other site 323097000482 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 323097000483 FtsI repressor; Provisional; Region: PRK10883 323097000484 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 323097000485 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 323097000486 Cytochrome c; Region: Cytochrom_C; cl11414 323097000487 transposase; Validated; Region: PRK08181 323097000488 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097000489 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 323097000490 catalytic residues [active] 323097000491 Recombinase; Region: Recombinase; pfam07508 323097000492 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 323097000493 Autoinducer binding domain; Region: Autoind_bind; pfam03472 323097000494 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 323097000495 DNA binding residues [nucleotide binding] 323097000496 dimerization interface [polypeptide binding]; other site 323097000497 Copper resistance protein D; Region: CopD; cl00563 323097000498 Bacterial Ig-like domain; Region: Big_5; cl01012 323097000499 Protein of unknown function, DUF; Region: DUF411; cl01142 323097000500 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 323097000501 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 323097000502 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 323097000503 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097000504 Protein of unknown function (DUF1109); Region: DUF1109; cl02071 323097000505 RNA polymerase sigma factor; Provisional; Region: PRK12539 323097000506 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323097000507 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 323097000508 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 323097000509 Phospholipid methyltransferase; Region: PEMT; cl00763 323097000510 OpgC protein; Region: OpgC_C; cl00792 323097000511 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 323097000512 metal-binding site [ion binding] 323097000513 MerT mercuric transport protein; Region: MerT; cl03578 323097000514 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 323097000515 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 323097000516 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 323097000517 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 323097000518 DNA binding residues [nucleotide binding] 323097000519 dimer interface [polypeptide binding]; other site 323097000520 metal binding site [ion binding]; metal-binding site 323097000521 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 323097000522 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 323097000523 putative substrate translocation pore; other site 323097000524 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 323097000525 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 323097000526 metal-binding site [ion binding] 323097000527 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 323097000528 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 323097000529 motif II; other site 323097000530 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 323097000531 metal-binding site [ion binding] 323097000532 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 323097000533 dimerization interface [polypeptide binding]; other site 323097000534 putative DNA binding site [nucleotide binding]; other site 323097000535 putative Zn2+ binding site [ion binding]; other site 323097000536 Small subunit of Arsenite oxidase (ArOX) family, Rieske domain; ArOX is a molybdenum/iron protein involved in the detoxification of arsenic, oxidizing it to arsenate. It consists of two subunits, a large subunit similar to members of the DMSO reductase...; Region: Rieske_ArOX_small; cd03476 323097000537 [2Fe-2S] cluster binding site [ion binding]; other site 323097000538 subunit interaction site [polypeptide binding]; other site 323097000539 Arsenite oxidase (Arsenite-Ox) oxidizes arsenite to the less toxic arsenate; it transfers the electrons obtained from the oxidation of arsenite towards the soluble periplasmic electron carriers cytochrome c and/or amicyanin. Arsenite oxidase is a...; Region: MopB_Arsenite-Ox; cd02756 323097000540 arsenite oxidase, large subunit; Region: arsenite_ox_L; TIGR02693 323097000541 [3Fe-4S] binding site [ion binding]; other site 323097000542 molybdopterin cofactor binding site [chemical binding]; other site 323097000543 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 323097000544 molybdopterin cofactor binding site; other site 323097000545 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 323097000546 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 323097000547 ArsC family; Region: ArsC; pfam03960 323097000548 catalytic residues [active] 323097000549 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 323097000550 amphipathic channel; other site 323097000551 Asn-Pro-Ala signature motifs; other site 323097000552 Helix-turn-helix domains; Region: HTH; cl00088 323097000553 Low molecular weight phosphatase family; Region: LMWPc; cd00115 323097000554 active site 323097000555 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 323097000556 dimerization interface [polypeptide binding]; other site 323097000557 putative DNA binding site [nucleotide binding]; other site 323097000558 putative Zn2+ binding site [ion binding]; other site 323097000559 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097000560 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 323097000561 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; cl11420 323097000562 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 323097000563 Autoinducer binding domain; Region: Autoind_bind; pfam03472 323097000564 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 323097000565 DNA binding residues [nucleotide binding] 323097000566 dimerization interface [polypeptide binding]; other site 323097000567 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 323097000568 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097000569 Walker A motif; other site 323097000570 ATP binding site [chemical binding]; other site 323097000571 Walker B motif; other site 323097000572 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 323097000573 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 323097000574 Walker A motif; other site 323097000575 hexamer interface [polypeptide binding]; other site 323097000576 ATP binding site [chemical binding]; other site 323097000577 Walker B motif; other site 323097000578 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 323097000579 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 323097000580 VirB7 interaction site; other site 323097000581 VirB8 protein; Region: VirB8; cl01500 323097000582 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 323097000583 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 323097000584 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 323097000585 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 323097000586 TrbC/VIRB2 family; Region: TrbC; cl01583 323097000587 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 catalyze...; Region: LT_GEWL; cd00254 323097000588 N-acetyl-D-glucosamine binding site [chemical binding]; other site 323097000589 catalytic residue [active] 323097000590 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 323097000591 dimer interface [polypeptide binding]; other site 323097000592 ssDNA binding site [nucleotide binding]; other site 323097000593 tetramer (dimer of dimers) interface [polypeptide binding]; other site 323097000594 Staphylococcal nuclease homologues; Region: SNc; smart00318 323097000595 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 323097000596 Catalytic site; other site 323097000597 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 323097000598 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 323097000599 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 323097000600 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 323097000601 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 323097000602 ATP binding site [chemical binding]; other site 323097000603 putative Mg++ binding site [ion binding]; other site 323097000604 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097000605 Superfamily II helicase [General function prediction only]; Region: COG1204 323097000606 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 323097000607 hypothetical protein; Validated; Region: PRK07078 323097000608 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 323097000609 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 323097000610 Domain of unknown function (DUF4326); Region: DUF4326; pfam14216 323097000611 Protein of unknown function (DUF1419); Region: DUF1419; pfam07215 323097000612 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 323097000613 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097000614 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097000615 ATP-dependent DNA helicase RecG; Region: recG; TIGR00643 323097000616 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097000617 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097000618 plasmid partitioning protein; Provisional; Region: PRK13832 323097000619 ParB-like nuclease domain; Region: ParBc; cl02129 323097000620 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 323097000621 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 323097000622 Protein of unknown function (DUF736); Region: DUF736; cl02303 323097000623 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 323097000624 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 323097000625 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 323097000626 Domain of unknown function (DUF955); Region: DUF955; cl01076 323097000627 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 323097000628 active site 323097000629 NTP binding site [chemical binding]; other site 323097000630 metal binding triad [ion binding]; metal-binding site 323097000631 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 323097000632 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097000633 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 323097000634 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097000635 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 323097000636 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 323097000637 ATP binding site [chemical binding]; other site 323097000638 putative Mg++ binding site [ion binding]; other site 323097000639 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 323097000640 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional; Region: PRK11331 323097000641 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 323097000642 Walker A motif; other site 323097000643 ATP binding site [chemical binding]; other site 323097000644 Walker B motif; other site 323097000645 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 323097000646 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 323097000647 HTH DNA binding domain; Region: HTH_13; pfam11972 323097000648 Winged helix-turn helix; Region: HTH_29; pfam13551 323097000649 Integrase core domain; Region: rve; cl01316 323097000650 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 323097000651 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097000652 TniQ; Region: TniQ; pfam06527 323097000653 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 323097000654 Protein of unknown function (DUF1403); Region: DUF1403; pfam07183 323097000655 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 323097000656 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 323097000657 DNA binding site [nucleotide binding] 323097000658 dimer interface [polypeptide binding]; other site 323097000659 Int/Topo IB signature motif; other site 323097000660 active site 323097000661 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 323097000662 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 323097000663 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 323097000664 DNA binding site [nucleotide binding] 323097000665 dimer interface [polypeptide binding]; other site 323097000666 Int/Topo IB signature motif; other site 323097000667 active site 323097000668 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 323097000669 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 323097000670 P-loop; other site 323097000671 Magnesium ion binding site [ion binding]; other site 323097000672 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 323097000673 Magnesium ion binding site [ion binding]; other site 323097000674 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 323097000675 ParB-like nuclease domain; Region: ParBc; cl02129 323097000676 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 323097000677 catalytic residue [active] 323097000678 replication initiation protein RepC; Provisional; Region: PRK13824 323097000679 Helix-turn-helix domains; Region: HTH; cl00088 323097000680 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 323097000681 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 323097000682 dimer interface [polypeptide binding]; other site 323097000683 ssDNA binding site [nucleotide binding]; other site 323097000684 tetramer (dimer of dimers) interface [polypeptide binding]; other site 323097000685 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 323097000686 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 323097000687 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097000688 Walker A/P-loop; other site 323097000689 ATP binding site [chemical binding]; other site 323097000690 replication initiation protein RepC; Provisional; Region: PRK13824 323097000691 Helix-turn-helix domains; Region: HTH; cl00088 323097000692 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 323097000693 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 323097000694 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 323097000695 P-loop; other site 323097000696 Magnesium ion binding site [ion binding]; other site 323097000697 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 323097000698 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 323097000699 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097000700 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097000701 Nitrogen regulatory protein P-II; Region: P-II; cl00412 323097000702 Nitrogen regulatory protein P-II; Region: P-II; smart00938 323097000703 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 323097000704 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 323097000705 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 323097000706 metal-binding site [ion binding] 323097000707 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 323097000708 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 323097000709 PilZ domain; Region: PilZ; cl01260 323097000710 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 323097000711 Dtr system oriT relaxase; Provisional; Region: PRK13826 323097000712 MobA/MobL family; Region: MobA_MobL; pfam03389 323097000713 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097000714 Family description; Region: UvrD_C_2; cl15862 323097000715 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 323097000716 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 323097000717 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 323097000718 active site 323097000719 catalytic triad [active] 323097000720 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 323097000721 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 323097000722 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 323097000723 putative dimer interface [polypeptide binding]; other site 323097000724 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 323097000725 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 323097000726 putative dimer interface [polypeptide binding]; other site 323097000727 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 323097000728 putative active site [active] 323097000729 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097000730 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323097000731 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097000732 Prokaryotic Transcriptional repressor TraM; Region: Prok-TraM; pfam09228 323097000733 transcriptional regulator TraR; Provisional; Region: PRK13870 323097000734 Autoinducer binding domain; Region: Autoind_bind; pfam03472 323097000735 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 323097000736 DNA binding residues [nucleotide binding] 323097000737 dimerization interface [polypeptide binding]; other site 323097000738 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 323097000739 conjugal transfer protein TrbH; Provisional; Region: PRK13835 323097000740 Conjugal transfer protein TrbH; Region: TrbH; pfam07283 323097000741 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 323097000742 VirB7 interaction site; other site 323097000743 VirB8 protein; Region: VirB8; cl01500 323097000744 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 323097000745 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 323097000746 conjugal transfer protein TrbE; Provisional; Region: PRK13830 323097000747 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 323097000748 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097000749 Walker A motif; other site 323097000750 ATP binding site [chemical binding]; other site 323097000751 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097000752 Walker B; other site 323097000753 D-loop; other site 323097000754 H-loop/switch region; other site 323097000755 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 323097000756 TrbC/VIRB2 family; Region: TrbC; cl01583 323097000757 conjugal transfer protein TrbB; Provisional; Region: PRK13833 323097000758 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 323097000759 ATP binding site [chemical binding]; other site 323097000760 Walker A motif; other site 323097000761 hexamer interface [polypeptide binding]; other site 323097000762 Walker B motif; other site 323097000763 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 323097000764 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 323097000765 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 323097000766 DNA binding residues [nucleotide binding] 323097000767 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 323097000768 P-loop; other site 323097000769 Magnesium ion binding site [ion binding]; other site 323097000770 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 323097000771 Magnesium ion binding site [ion binding]; other site 323097000772 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 323097000773 ParB-like nuclease domain; Region: ParBc; cl02129 323097000774 replication initiation protein RepC; Provisional; Region: PRK13824 323097000775 Helix-turn-helix domains; Region: HTH; cl00088 323097000776 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 323097000777 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 323097000778 oligomeric interface; other site 323097000779 putative active site [active] 323097000780 homodimer interface [polypeptide binding]; other site 323097000781 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 323097000782 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 323097000783 DNA binding site [nucleotide binding] 323097000784 dimer interface [polypeptide binding]; other site 323097000785 Int/Topo IB signature motif; other site 323097000786 active site 323097000787 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 323097000788 putative active site [active] 323097000789 Rv0623-like transcription factor; Region: PSK_trans_fac; cl01834 323097000790 Integrase core domain; Region: rve; cl01316 323097000791 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 323097000792 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097000793 AAA domain; Region: AAA_22; pfam13401 323097000794 TniQ; Region: TniQ; pfam06527 323097000795 Protein of unknown function (DUF1403); Region: DUF1403; pfam07183 323097000796 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 323097000797 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 323097000798 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 323097000799 CHASE3 domain; Region: CHASE3; cl05000 323097000800 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 323097000801 GAF domain; Region: GAF; cl15785 323097000802 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323097000803 metal binding site [ion binding]; metal-binding site 323097000804 active site 323097000805 I-site; other site 323097000806 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 323097000807 Domain of unknown function DUF21; Region: DUF21; pfam01595 323097000808 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 323097000809 Transporter associated domain; Region: CorC_HlyC; cl08393 323097000810 Transposase IS200 like; Region: Y1_Tnp; cl00848 323097000811 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 323097000812 Helix-turn-helix domains; Region: HTH; cl00088 323097000813 Winged helix-turn helix; Region: HTH_29; pfam13551 323097000814 Helix-turn-helix domains; Region: HTH; cl00088 323097000815 Integrase core domain; Region: rve; cl01316 323097000816 Helix-turn-helix domains; Region: HTH; cl00088 323097000817 Winged helix-turn helix; Region: HTH_29; pfam13551 323097000818 Helix-turn-helix domains; Region: HTH; cl00088 323097000819 Integrase core domain; Region: rve; cl01316 323097000820 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 323097000821 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 323097000822 putative di-iron ligands [ion binding]; other site 323097000823 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 323097000824 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 323097000825 CheB methylesterase; Region: CheB_methylest; pfam01339 323097000826 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 323097000827 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 323097000828 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097000829 PAS domain; Region: PAS_10; pfam13596 323097000830 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 323097000831 Histidine kinase; Region: HisKA_2; cl06527 323097000832 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 323097000833 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 323097000834 catalytic residues [active] 323097000835 catalytic nucleophile [active] 323097000836 Recombinase; Region: Recombinase; pfam07508 323097000837 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 323097000838 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 323097000839 Sulfate transporter family; Region: Sulfate_transp; cl15842 323097000840 Sulfate transporter family; Region: Sulfate_transp; cl15842 323097000841 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 323097000842 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097000843 PAS domain; Region: PAS_10; pfam13596 323097000844 PAS fold; Region: PAS_4; pfam08448 323097000845 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 323097000846 Histidine kinase; Region: HisKA_2; cl06527 323097000847 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 323097000848 active site 323097000849 catalytic residue [active] 323097000850 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 323097000851 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 323097000852 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 323097000853 Sulphur transport; Region: Sulf_transp; cl01018 323097000854 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 323097000855 Predicted transporter component [General function prediction only]; Region: COG2391 323097000856 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097000857 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097000858 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097000859 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 323097000860 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 323097000861 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 323097000862 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 323097000863 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 323097000864 FtsI repressor; Provisional; Region: PRK10883 323097000865 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 323097000866 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 323097000867 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 323097000868 Domain of unknown function (DUF4396); Region: DUF4396; pfam14342 323097000869 Cytochrome c; Region: Cytochrom_C; cl11414 323097000870 Helix-turn-helix domains; Region: HTH; cl00088 323097000871 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 323097000872 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 323097000873 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 323097000874 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 323097000875 catalytic residues [active] 323097000876 Protein of unknown function (DUF1109); Region: DUF1109; cl02071 323097000877 RNA polymerase sigma factor; Provisional; Region: PRK12512 323097000878 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 323097000879 DNA binding residues [nucleotide binding] 323097000880 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 323097000881 Protein of unknown function (DUF692); Region: DUF692; cl01263 323097000882 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 323097000883 DoxX; Region: DoxX; cl00976 323097000884 hypothetical protein; Validated; Region: PRK07078 323097000885 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 323097000886 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 323097000887 Protein of unknown function (DUF1419); Region: DUF1419; pfam07215 323097000888 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 323097000889 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 323097000890 S-adenosylmethionine binding site [chemical binding]; other site 323097000891 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097000892 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097000893 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097000894 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 323097000895 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 323097000896 plasmid partitioning protein; Provisional; Region: PRK13832 323097000897 ParB-like nuclease domain; Region: ParBc; cl02129 323097000898 RelB antitoxin; Region: RelB; cl01171 323097000899 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 323097000900 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097000901 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 323097000902 dimer interface [polypeptide binding]; other site 323097000903 ssDNA binding site [nucleotide binding]; other site 323097000904 tetramer (dimer of dimers) interface [polypeptide binding]; other site 323097000905 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 323097000906 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 323097000907 Catalytic site; other site 323097000908 conjugal transfer coupling protein TraG; Provisional; Region: PRK13822 323097000909 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097000910 Walker A motif; other site 323097000911 ATP binding site [chemical binding]; other site 323097000912 Walker B motif; other site 323097000913 Conjugal transfer protein TraD; Region: TraD; cl05753 323097000914 TraC-like protein; Region: TraC; cl06725 323097000915 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 323097000916 DnaA N-terminal domain; Region: DnaA_N; pfam11638 323097000917 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 323097000918 Walker A motif; other site 323097000919 ATP binding site [chemical binding]; other site 323097000920 Walker B motif; other site 323097000921 arginine finger; other site 323097000922 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 323097000923 DnaA box-binding interface [nucleotide binding]; other site 323097000924 DNA polymerase III subunit beta; Validated; Region: PRK05643 323097000925 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 323097000926 putative DNA binding surface [nucleotide binding]; other site 323097000927 dimer interface [polypeptide binding]; other site 323097000928 beta-clamp/clamp loader binding surface; other site 323097000929 beta-clamp/translesion DNA polymerase binding surface; other site 323097000930 recombination protein F; Reviewed; Region: recF; PRK00064 323097000931 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097000932 Walker A/P-loop; other site 323097000933 ATP binding site [chemical binding]; other site 323097000934 Q-loop/lid; other site 323097000935 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097000936 ABC transporter signature motif; other site 323097000937 Walker B; other site 323097000938 D-loop; other site 323097000939 H-loop/switch region; other site 323097000940 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 323097000941 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 323097000942 Mg2+ binding site [ion binding]; other site 323097000943 G-X-G motif; other site 323097000944 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 323097000945 anchoring element; other site 323097000946 dimer interface [polypeptide binding]; other site 323097000947 ATP binding site [chemical binding]; other site 323097000948 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 323097000949 active site 323097000950 putative metal-binding site [ion binding]; other site 323097000951 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 323097000952 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 323097000953 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 323097000954 Pirin-related protein [General function prediction only]; Region: COG1741 323097000955 Cupin domain; Region: Cupin_2; cl09118 323097000956 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 323097000957 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 adenosine...; Region: adenosine_kinase; cd01168 323097000958 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 323097000959 substrate binding site [chemical binding]; other site 323097000960 ATP binding site [chemical binding]; other site 323097000961 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 323097000962 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 323097000963 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 323097000964 active site 323097000965 HIGH motif; other site 323097000966 dimer interface [polypeptide binding]; other site 323097000967 KMSKS motif; other site 323097000968 Transposase domain (DUF772); Region: DUF772; cl15789 323097000969 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097000970 Transposase domain (DUF772); Region: DUF772; cl15789 323097000971 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 323097000972 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 323097000973 NifU-like domain; Region: NifU; cl00484 323097000974 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 323097000975 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 323097000976 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 323097000977 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 323097000978 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 323097000979 metal binding site 2 [ion binding]; metal-binding site 323097000980 putative DNA binding helix; other site 323097000981 metal binding site 1 [ion binding]; metal-binding site 323097000982 dimer interface [polypeptide binding]; other site 323097000983 structural Zn2+ binding site [ion binding]; other site 323097000984 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 323097000985 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 323097000986 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 323097000987 FeS/SAM binding site; other site 323097000988 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 323097000989 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 323097000990 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097000991 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 323097000992 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 323097000993 Transporter associated domain; Region: CorC_HlyC; cl08393 323097000994 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 323097000995 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 323097000996 putative active site [active] 323097000997 catalytic triad [active] 323097000998 putative dimer interface [polypeptide binding]; other site 323097000999 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 323097001000 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 323097001001 non-specific DNA binding site [nucleotide binding]; other site 323097001002 salt bridge; other site 323097001003 sequence-specific DNA binding site [nucleotide binding]; other site 323097001004 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; cl15754 323097001005 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 323097001006 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 323097001007 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 323097001008 Sm1 motif; other site 323097001009 D3 - B interaction site; other site 323097001010 D1 - D2 interaction site; other site 323097001011 Hfq - Hfq interaction site; other site 323097001012 RNA binding pocket [nucleotide binding]; other site 323097001013 Sm2 motif; other site 323097001014 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 323097001015 NusA N-terminal domain; Region: NusA_N; pfam08529 323097001016 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 323097001017 RNA binding site [nucleotide binding]; other site 323097001018 homodimer interface [polypeptide binding]; other site 323097001019 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 323097001020 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 323097001021 G-X-X-G motif; other site 323097001022 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 323097001023 hypothetical protein; Provisional; Region: PRK09190 323097001024 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 323097001025 putative RNA binding cleft [nucleotide binding]; other site 323097001026 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 323097001027 translation initiation factor IF-2; Region: IF-2; TIGR00487 323097001028 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 323097001029 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 323097001030 G1 box; other site 323097001031 putative GEF interaction site [polypeptide binding]; other site 323097001032 GTP/Mg2+ binding site [chemical binding]; other site 323097001033 Switch I region; other site 323097001034 G2 box; other site 323097001035 G3 box; other site 323097001036 Switch II region; other site 323097001037 G4 box; other site 323097001038 G5 box; other site 323097001039 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 323097001040 Translation-initiation factor 2; Region: IF-2; pfam11987 323097001041 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 323097001042 Ribosome-binding factor A; Region: RBFA; cl00542 323097001043 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 323097001044 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 323097001045 RNA binding site [nucleotide binding]; other site 323097001046 active site 323097001047 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 323097001048 16S/18S rRNA binding site [nucleotide binding]; other site 323097001049 S13e-L30e interaction site [polypeptide binding]; other site 323097001050 25S rRNA binding site [nucleotide binding]; other site 323097001051 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 323097001052 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 323097001053 RNase E interface [polypeptide binding]; other site 323097001054 trimer interface [polypeptide binding]; other site 323097001055 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 323097001056 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 323097001057 RNase E interface [polypeptide binding]; other site 323097001058 trimer interface [polypeptide binding]; other site 323097001059 active site 323097001060 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 323097001061 putative nucleic acid binding region [nucleotide binding]; other site 323097001062 G-X-X-G motif; other site 323097001063 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 323097001064 RNA binding site [nucleotide binding]; other site 323097001065 domain interface; other site 323097001066 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 323097001067 Helix-turn-helix domains; Region: HTH; cl00088 323097001068 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 323097001069 dimerization interface [polypeptide binding]; other site 323097001070 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 323097001071 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 323097001072 dimer interface [polypeptide binding]; other site 323097001073 active site 323097001074 heme binding site [chemical binding]; other site 323097001075 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 323097001076 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 323097001077 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 323097001078 putative GSH binding site (G-site) [chemical binding]; other site 323097001079 putative C-terminal domain interface [polypeptide binding]; other site 323097001080 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 323097001081 dimer interface [polypeptide binding]; other site 323097001082 N-terminal domain interface [polypeptide binding]; other site 323097001083 putative substrate binding pocket (H-site) [chemical binding]; other site 323097001084 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 323097001085 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 323097001086 NAD binding site [chemical binding]; other site 323097001087 homotetramer interface [polypeptide binding]; other site 323097001088 homodimer interface [polypeptide binding]; other site 323097001089 substrate binding site [chemical binding]; other site 323097001090 active site 323097001091 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 323097001092 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 323097001093 dimer interface [polypeptide binding]; other site 323097001094 active site 323097001095 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 323097001096 active site 1 [active] 323097001097 dimer interface [polypeptide binding]; other site 323097001098 active site 2 [active] 323097001099 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 323097001100 metal binding site 2 [ion binding]; metal-binding site 323097001101 putative DNA binding helix; other site 323097001102 metal binding site 1 [ion binding]; metal-binding site 323097001103 dimer interface [polypeptide binding]; other site 323097001104 structural Zn2+ binding site [ion binding]; other site 323097001105 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 323097001106 Bacterial SH3 domain; Region: SH3_3; cl02551 323097001107 Bacterial SH3 domain; Region: SH3_3; cl02551 323097001108 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 323097001109 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097001110 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 323097001111 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 323097001112 ATP binding site [chemical binding]; other site 323097001113 substrate interface [chemical binding]; other site 323097001114 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 323097001115 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 323097001116 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 323097001117 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 323097001118 DNA binding site [nucleotide binding] 323097001119 catalytic residue [active] 323097001120 H2TH interface [polypeptide binding]; other site 323097001121 putative catalytic residues [active] 323097001122 turnover-facilitating residue; other site 323097001123 intercalation triad [nucleotide binding]; other site 323097001124 8OG recognition residue [nucleotide binding]; other site 323097001125 putative reading head residues; other site 323097001126 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 323097001127 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 323097001128 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 323097001129 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 323097001130 S-adenosylmethionine binding site [chemical binding]; other site 323097001131 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 323097001132 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 323097001133 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 323097001134 active site 323097001135 ATP binding site [chemical binding]; other site 323097001136 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional; Region: PRK13982 323097001137 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 323097001138 Flavoprotein; Region: Flavoprotein; cl08021 323097001139 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 323097001140 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 323097001141 trimer interface [polypeptide binding]; other site 323097001142 active site 323097001143 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 323097001144 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 323097001145 PAS fold; Region: PAS_7; pfam12860 323097001146 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 323097001147 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 323097001148 dimer interface [polypeptide binding]; other site 323097001149 phosphorylation site [posttranslational modification] 323097001150 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 323097001151 ATP binding site [chemical binding]; other site 323097001152 Mg2+ binding site [ion binding]; other site 323097001153 G-X-G motif; other site 323097001154 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 323097001155 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 323097001156 Phosphotransferase enzyme family; Region: APH; pfam01636 323097001157 PilZ domain; Region: PilZ; cl01260 323097001158 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 323097001159 Substrate binding site; other site 323097001160 metal-binding site 323097001161 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 323097001162 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 323097001163 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 323097001164 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 323097001165 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097001166 Family description; Region: UvrD_C_2; cl15862 323097001167 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 323097001168 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 323097001169 catalytic residues [active] 323097001170 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 323097001171 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 323097001172 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 323097001173 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 323097001174 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 323097001175 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 323097001176 substrate binding site [chemical binding]; other site 323097001177 active site 323097001178 catalytic residues [active] 323097001179 heterodimer interface [polypeptide binding]; other site 323097001180 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 323097001181 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 323097001182 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097001183 catalytic residue [active] 323097001184 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 monomeric; Region: PRAI; cd00405 323097001185 active site 323097001186 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 323097001187 IHF dimer interface [polypeptide binding]; other site 323097001188 IHF - DNA interface [nucleotide binding]; other site 323097001189 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 323097001190 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 323097001191 tandem repeat interface [polypeptide binding]; other site 323097001192 oligomer interface [polypeptide binding]; other site 323097001193 active site residues [active] 323097001194 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 323097001195 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 323097001196 catalytic residues [active] 323097001197 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 323097001198 probable polyamine oxidase; Region: PLN02268 323097001199 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 323097001200 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_IV; cd01994 323097001201 Ligand Binding Site [chemical binding]; other site 323097001202 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 323097001203 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 323097001204 putative tRNA-binding site [nucleotide binding]; other site 323097001205 B3/4 domain; Region: B3_4; cl11458 323097001206 tRNA synthetase B5 domain; Region: B5; cl08394 323097001207 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 323097001208 dimer interface [polypeptide binding]; other site 323097001209 motif 1; other site 323097001210 motif 3; other site 323097001211 motif 2; other site 323097001212 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 323097001213 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 323097001214 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 323097001215 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 323097001216 dimer interface [polypeptide binding]; other site 323097001217 motif 1; other site 323097001218 active site 323097001219 motif 2; other site 323097001220 motif 3; other site 323097001221 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 323097001222 23S rRNA binding site [nucleotide binding]; other site 323097001223 L21 binding site [polypeptide binding]; other site 323097001224 L13 binding site [polypeptide binding]; other site 323097001225 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 323097001226 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 323097001227 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 323097001228 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 323097001229 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 323097001230 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 323097001231 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 323097001232 PAS domain; Region: PAS_9; pfam13426 323097001233 putative active site [active] 323097001234 heme pocket [chemical binding]; other site 323097001235 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 323097001236 PAS domain; Region: PAS_9; pfam13426 323097001237 putative active site [active] 323097001238 heme pocket [chemical binding]; other site 323097001239 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 323097001240 PAS domain; Region: PAS_9; pfam13426 323097001241 putative active site [active] 323097001242 heme pocket [chemical binding]; other site 323097001243 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 323097001244 PAS domain; Region: PAS_9; pfam13426 323097001245 putative active site [active] 323097001246 heme pocket [chemical binding]; other site 323097001247 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 323097001248 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 323097001249 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 323097001250 Trm112p-like protein; Region: Trm112p; cl01066 323097001251 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 323097001252 Nitrogen regulatory protein P-II; Region: P-II; cl00412 323097001253 Nitrogen regulatory protein P-II; Region: P-II; smart00938 323097001254 Nitrogen regulatory protein P-II; Region: P-II; cl00412 323097001255 Nitrogen regulatory protein P-II; Region: P-II; smart00938 323097001256 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 323097001257 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 323097001258 active site 323097001259 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 323097001260 catalytic triad [active] 323097001261 dimer interface [polypeptide binding]; other site 323097001262 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 323097001263 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097001264 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 323097001265 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 323097001266 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097001267 homodimer interface [polypeptide binding]; other site 323097001268 catalytic residue [active] 323097001269 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 323097001270 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097001271 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 323097001272 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 323097001273 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 323097001274 putative phosphate binding site [ion binding]; other site 323097001275 putative catalytic site [active] 323097001276 active site 323097001277 metal binding site A [ion binding]; metal-binding site 323097001278 DNA binding site [nucleotide binding] 323097001279 putative AP binding site [nucleotide binding]; other site 323097001280 putative metal binding site B [ion binding]; other site 323097001281 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 323097001282 ligand binding site [chemical binding]; other site 323097001283 flexible hinge region; other site 323097001284 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097001285 active site 323097001286 phosphorylation site [posttranslational modification] 323097001287 intermolecular recognition site; other site 323097001288 dimerization interface [polypeptide binding]; other site 323097001289 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 323097001290 DNA binding site [nucleotide binding] 323097001291 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 323097001292 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 323097001293 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 323097001294 catalytic residue [active] 323097001295 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 323097001296 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 323097001297 C-terminal domain interface [polypeptide binding]; other site 323097001298 GSH binding site (G-site) [chemical binding]; other site 323097001299 dimer interface [polypeptide binding]; other site 323097001300 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 323097001301 dimer interface [polypeptide binding]; other site 323097001302 N-terminal domain interface [polypeptide binding]; other site 323097001303 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 323097001304 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 323097001305 HIGH motif; other site 323097001306 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 323097001307 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 323097001308 active site 323097001309 KMSKS motif; other site 323097001310 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 323097001311 tRNA binding surface [nucleotide binding]; other site 323097001312 Lipopolysaccharide-assembly; Region: LptE; cl01125 323097001313 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 323097001314 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 323097001315 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 323097001316 GIY-YIG motif/motif A; other site 323097001317 putative active site [active] 323097001318 putative metal binding site [ion binding]; other site 323097001319 ParB-like partition proteins; Region: parB_part; TIGR00180 323097001320 ParB-like nuclease domain; Region: ParBc; cl02129 323097001321 KorB domain; Region: KorB; pfam08535 323097001322 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 323097001323 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 323097001324 P-loop; other site 323097001325 Magnesium ion binding site [ion binding]; other site 323097001326 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 323097001327 Magnesium ion binding site [ion binding]; other site 323097001328 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; cl15754 323097001329 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 323097001330 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097001331 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 323097001332 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 323097001333 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 323097001334 trmE is a tRNA modification GTPase; Region: trmE; cd04164 323097001335 G1 box; other site 323097001336 GTP/Mg2+ binding site [chemical binding]; other site 323097001337 Switch I region; other site 323097001338 G2 box; other site 323097001339 Switch II region; other site 323097001340 G3 box; other site 323097001341 G4 box; other site 323097001342 G5 box; other site 323097001343 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 323097001344 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 323097001345 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 323097001346 catalytic residues [active] 323097001347 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 323097001348 transcription termination factor Rho; Provisional; Region: rho; PRK09376 323097001349 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 323097001350 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 323097001351 RNA binding site [nucleotide binding]; other site 323097001352 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 323097001353 multimer interface [polypeptide binding]; other site 323097001354 Walker A motif; other site 323097001355 ATP binding site [chemical binding]; other site 323097001356 Walker B motif; other site 323097001357 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323097001358 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097001359 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097001360 Transposase, Mutator family; Region: Transposase_mut; pfam00872 323097001361 MULE transposase domain; Region: MULE; pfam10551 323097001362 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 323097001363 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 323097001364 Maf-like protein; Region: Maf; pfam02545 323097001365 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 323097001366 active site 323097001367 dimer interface [polypeptide binding]; other site 323097001368 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 323097001369 dephospho-CoA kinase; Region: TIGR00152 323097001370 CoA-binding site [chemical binding]; other site 323097001371 ATP-binding [chemical binding]; other site 323097001372 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 323097001373 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 323097001374 active site 323097001375 substrate binding site [chemical binding]; other site 323097001376 catalytic site [active] 323097001377 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 323097001378 SecA binding site; other site 323097001379 Preprotein binding site; other site 323097001380 Tim44-like domain; Region: Tim44; cl09208 323097001381 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 323097001382 MltA specific insert domain; Region: MltA; cl08398 323097001383 3D domain; Region: 3D; cl01439 323097001384 Smr domain; Region: Smr; cl02619 323097001385 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 323097001386 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097001387 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 323097001388 Walker A motif; other site 323097001389 ATP binding site [chemical binding]; other site 323097001390 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097001391 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 323097001392 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 323097001393 active site 323097001394 HslU subunit interaction site [polypeptide binding]; other site 323097001395 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 323097001396 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 323097001397 putative active site pocket [active] 323097001398 4-fold oligomerization interface [polypeptide binding]; other site 323097001399 metal binding residues [ion binding]; metal-binding site 323097001400 3-fold/trimer interface [polypeptide binding]; other site 323097001401 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 323097001402 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 323097001403 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 323097001404 putative active site [active] 323097001405 oxyanion strand; other site 323097001406 catalytic triad [active] 323097001407 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 323097001408 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 323097001409 catalytic residues [active] 323097001410 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 323097001411 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 323097001412 substrate binding site [chemical binding]; other site 323097001413 glutamase interaction surface [polypeptide binding]; other site 323097001414 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 323097001415 pantothenate kinase; Provisional; Region: PRK05439 323097001416 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in...; Region: PanK; cd02025 323097001417 ATP-binding site [chemical binding]; other site 323097001418 CoA-binding site [chemical binding]; other site 323097001419 Mg2+-binding site [ion binding]; other site 323097001420 PAS domain S-box; Region: sensory_box; TIGR00229 323097001421 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 323097001422 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 323097001423 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 323097001424 dimer interface [polypeptide binding]; other site 323097001425 phosphorylation site [posttranslational modification] 323097001426 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 323097001427 ATP binding site [chemical binding]; other site 323097001428 Mg2+ binding site [ion binding]; other site 323097001429 G-X-G motif; other site 323097001430 Response regulator receiver domain; Region: Response_reg; pfam00072 323097001431 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097001432 active site 323097001433 phosphorylation site [posttranslational modification] 323097001434 intermolecular recognition site; other site 323097001435 dimerization interface [polypeptide binding]; other site 323097001436 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097001437 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 323097001438 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323097001439 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097001440 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097001441 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 323097001442 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 323097001443 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 323097001444 catalytic residues [active] 323097001445 catalytic nucleophile [active] 323097001446 Recombinase; Region: Recombinase; pfam07508 323097001447 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 323097001448 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 323097001449 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097001450 glutathione synthetase; Provisional; Region: PRK05246 323097001451 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 323097001452 ATP-grasp domain; Region: ATP-grasp_4; cl03087 323097001453 Restriction endonuclease; Region: Mrr_cat; cl00516 323097001454 Predicted methyltransferases [General function prediction only]; Region: COG0313 323097001455 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 323097001456 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 323097001457 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 323097001458 putative ligand binding site [chemical binding]; other site 323097001459 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 323097001460 HemN C-terminal domain; Region: HemN_C; pfam06969 323097001461 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 323097001462 active site 323097001463 dimerization interface [polypeptide binding]; other site 323097001464 ribonuclease PH; Reviewed; Region: rph; PRK00173 323097001465 Ribonuclease PH; Region: RNase_PH_bact; cd11362 323097001466 hexamer interface [polypeptide binding]; other site 323097001467 active site 323097001468 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 323097001469 HrcA protein C terminal domain; Region: HrcA; pfam01628 323097001470 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 323097001471 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 323097001472 dimer interface [polypeptide binding]; other site 323097001473 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 323097001474 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 323097001475 chaperone protein DnaJ; Provisional; Region: PRK10767 323097001476 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 323097001477 HSP70 interaction site [polypeptide binding]; other site 323097001478 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 323097001479 substrate binding site [polypeptide binding]; other site 323097001480 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 323097001481 Zn binding sites [ion binding]; other site 323097001482 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 323097001483 dimer interface [polypeptide binding]; other site 323097001484 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 323097001485 S-adenosylmethionine binding site [chemical binding]; other site 323097001486 dihydrodipicolinate reductase; Provisional; Region: PRK00048 323097001487 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097001488 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 323097001489 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 323097001490 catalytic core [active] 323097001491 Helix-turn-helix domain; Region: HTH_18; pfam12833 323097001492 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 323097001493 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 323097001494 DNA binding site [nucleotide binding] 323097001495 active site 323097001496 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 323097001497 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 323097001498 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 323097001499 minor groove reading motif; other site 323097001500 helix-hairpin-helix signature motif; other site 323097001501 substrate binding pocket [chemical binding]; other site 323097001502 active site 323097001503 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 323097001504 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 323097001505 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 323097001506 RNA binding site [nucleotide binding]; other site 323097001507 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 323097001508 RNA binding site [nucleotide binding]; other site 323097001509 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 323097001510 RNA binding site [nucleotide binding]; other site 323097001511 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 323097001512 RNA binding site [nucleotide binding]; other site 323097001513 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 of...; Region: S1_RPS1_repeat_ec5; cd05690 323097001514 RNA binding site [nucleotide binding]; other site 323097001515 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec6; cd05691 323097001516 RNA binding site [nucleotide binding]; other site 323097001517 cytidylate kinase; Provisional; Region: cmk; PRK00023 323097001518 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 323097001519 CMP-binding site; other site 323097001520 The sites determining sugar specificity; other site 323097001521 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 323097001522 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 323097001523 hinge; other site 323097001524 active site 323097001525 TIGR02300 family protein; Region: FYDLN_acid 323097001526 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 323097001527 putative dimer interface [polypeptide binding]; other site 323097001528 Protein of unknown function (DUF1150); Region: DUF1150; cl11577 323097001529 Dehydratase family; Region: ILVD_EDD; cl00340 323097001530 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 323097001531 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 323097001532 active site 323097001533 phosphorylation site [posttranslational modification] 323097001534 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 A site; Region: RaiA; cd00552 323097001535 30S subunit binding site; other site 323097001536 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 323097001537 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 323097001538 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 323097001539 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 323097001540 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 323097001541 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 323097001542 Walker A/P-loop; other site 323097001543 ATP binding site [chemical binding]; other site 323097001544 Q-loop/lid; other site 323097001545 ABC transporter signature motif; other site 323097001546 Walker B; other site 323097001547 D-loop; other site 323097001548 H-loop/switch region; other site 323097001549 OstA-like protein; Region: OstA; cl00844 323097001550 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 323097001551 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 323097001552 putative active site [active] 323097001553 catalytic site [active] 323097001554 putative substrate binding site [chemical binding]; other site 323097001555 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 323097001556 putative metal binding site [ion binding]; other site 323097001557 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 323097001558 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 323097001559 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 323097001560 putative NAD(P) binding site [chemical binding]; other site 323097001561 active site 323097001562 Bacitracin resistance protein BacA; Region: BacA; cl00858 323097001563 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 323097001564 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 323097001565 C-terminal domain interface [polypeptide binding]; other site 323097001566 GSH binding site (G-site) [chemical binding]; other site 323097001567 dimer interface [polypeptide binding]; other site 323097001568 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 323097001569 N-terminal domain interface [polypeptide binding]; other site 323097001570 dimer interface [polypeptide binding]; other site 323097001571 substrate binding pocket (H-site) [chemical binding]; other site 323097001572 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 323097001573 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097001574 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 323097001575 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 323097001576 MatE; Region: MatE; cl10513 323097001577 MatE; Region: MatE; cl10513 323097001578 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; cl01461 323097001579 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 323097001580 ATP-grasp domain; Region: ATP-grasp_4; cl03087 323097001581 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 323097001582 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 323097001583 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 323097001584 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 323097001585 Cytochrome c [Energy production and conversion]; Region: COG3258 323097001586 Cytochrome c; Region: Cytochrom_C; cl11414 323097001587 Cytochrome c; Region: Cytochrom_C; cl11414 323097001588 Cytochrome c; Region: Cytochrom_C; cl11414 323097001589 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 323097001590 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 323097001591 purine monophosphate binding site [chemical binding]; other site 323097001592 dimer interface [polypeptide binding]; other site 323097001593 putative catalytic residues [active] 323097001594 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 323097001595 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 323097001596 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 323097001597 16S rRNA methyltransferase B; Provisional; Region: PRK10901 323097001598 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 323097001599 putative RNA binding site [nucleotide binding]; other site 323097001600 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 323097001601 S-adenosylmethionine binding site [chemical binding]; other site 323097001602 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 323097001603 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 323097001604 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 323097001605 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 323097001606 active site 323097001607 nucleotide binding site [chemical binding]; other site 323097001608 HIGH motif; other site 323097001609 KMSKS motif; other site 323097001610 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 323097001611 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 323097001612 substrate binding pocket [chemical binding]; other site 323097001613 membrane-bound complex binding site; other site 323097001614 hinge residues; other site 323097001615 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 323097001616 active site 323097001617 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 323097001618 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 323097001619 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 323097001620 non-specific DNA binding site [nucleotide binding]; other site 323097001621 salt bridge; other site 323097001622 sequence-specific DNA binding site [nucleotide binding]; other site 323097001623 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 323097001624 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 323097001625 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 323097001626 Cu(I) binding site [ion binding]; other site 323097001627 RNA polymerase sigma factor; Provisional; Region: PRK11922 323097001628 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323097001629 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 323097001630 DNA binding residues [nucleotide binding] 323097001631 Domain of unknown function (DUF305); Region: DUF305; cl15795 323097001632 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 323097001633 CrcB-like protein; Region: CRCB; cl09114 323097001634 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 323097001635 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 323097001636 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 323097001637 trimer interface [polypeptide binding]; other site 323097001638 active site 323097001639 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 323097001640 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 323097001641 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 323097001642 homodimer interface [polypeptide binding]; other site 323097001643 substrate-cofactor binding pocket; other site 323097001644 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097001645 catalytic residue [active] 323097001646 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 323097001647 active site 323097001648 catalytic triad [active] 323097001649 oxyanion hole [active] 323097001650 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 323097001651 active site 323097001652 oxyanion hole [active] 323097001653 OpgC protein; Region: OpgC_C; cl00792 323097001654 Protein of unknown function (DUF525); Region: DUF525; cl01119 323097001655 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 323097001656 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 323097001657 dimerization interface [polypeptide binding]; other site 323097001658 domain crossover interface; other site 323097001659 redox-dependent activation switch; other site 323097001660 OsmC-like protein; Region: OsmC; cl00767 323097001661 PII uridylyl-transferase; Provisional; Region: PRK05092 323097001662 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 323097001663 metal binding triad; other site 323097001664 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 323097001665 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 323097001666 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 323097001667 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 323097001668 Transglycosylase; Region: Transgly; cl07896 323097001669 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 323097001670 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 323097001671 Protein of unknown function DUF45; Region: DUF45; cl00636 323097001672 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 323097001673 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 323097001674 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323097001675 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 323097001676 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 323097001677 ATP binding site [chemical binding]; other site 323097001678 Mg2+ binding site [ion binding]; other site 323097001679 G-X-G motif; other site 323097001680 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 323097001681 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097001682 active site 323097001683 phosphorylation site [posttranslational modification] 323097001684 intermolecular recognition site; other site 323097001685 dimerization interface [polypeptide binding]; other site 323097001686 Helix-turn-helix domains; Region: HTH; cl00088 323097001687 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 323097001688 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 323097001689 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 323097001690 PAS fold; Region: PAS_3; pfam08447 323097001691 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 323097001692 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 323097001693 PAS fold; Region: PAS_3; pfam08447 323097001694 putative active site [active] 323097001695 heme pocket [chemical binding]; other site 323097001696 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 323097001697 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 323097001698 putative active site [active] 323097001699 heme pocket [chemical binding]; other site 323097001700 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 323097001701 dimer interface [polypeptide binding]; other site 323097001702 phosphorylation site [posttranslational modification] 323097001703 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 323097001704 ATP binding site [chemical binding]; other site 323097001705 Mg2+ binding site [ion binding]; other site 323097001706 G-X-G motif; other site 323097001707 Response regulator receiver domain; Region: Response_reg; pfam00072 323097001708 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097001709 active site 323097001710 phosphorylation site [posttranslational modification] 323097001711 intermolecular recognition site; other site 323097001712 dimerization interface [polypeptide binding]; other site 323097001713 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 323097001714 ligand binding site [chemical binding]; other site 323097001715 Peptidase family M48; Region: Peptidase_M48; cl12018 323097001716 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 323097001717 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 323097001718 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 323097001719 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 323097001720 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 323097001721 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 323097001722 ATP binding site [chemical binding]; other site 323097001723 putative Mg++ binding site [ion binding]; other site 323097001724 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 323097001725 nucleotide binding region [chemical binding]; other site 323097001726 ATP-binding site [chemical binding]; other site 323097001727 DEAD/H associated; Region: DEAD_assoc; pfam08494 323097001728 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 323097001729 putative active site [active] 323097001730 putative metal binding site [ion binding]; other site 323097001731 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323097001732 Helix-turn-helix domains; Region: HTH; cl00088 323097001733 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 323097001734 dimerization interface [polypeptide binding]; other site 323097001735 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 323097001736 EamA-like transporter family; Region: EamA; cl01037 323097001737 EamA-like transporter family; Region: EamA; cl01037 323097001738 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; cl09826 323097001739 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 323097001740 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097001741 Transposase domain (DUF772); Region: DUF772; cl15789 323097001742 Transposase domain (DUF772); Region: DUF772; cl15789 323097001743 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 323097001744 Sel1 repeat; Region: Sel1; cl02723 323097001745 Sel1 repeat; Region: Sel1; cl02723 323097001746 Sel1 repeat; Region: Sel1; cl02723 323097001747 Sel1 repeat; Region: Sel1; cl02723 323097001748 Helix-turn-helix domains; Region: HTH; cl00088 323097001749 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 323097001750 PAN/APPLE-like domain; present in N-terminal (N) domains of plasminogen/ hepatocyte growth factor proteins, plasma prekallikrein/coagulation factor XI and microneme antigen proteins, plant receptor-like protein kinases, and various nematode and leech...; Region: PAN_APPLE; cl00112 323097001751 Subfamily of PAN/APPLE-like domains; present in plasma prekallikrein/coagulation factor XI, microneme antigen proteins, and a few prokaryotic proteins. PAN/APPLE domains fulfill diverse biological functions by mediating protein-protein or...; Region: APPLE_Factor_XI_like; cd01100 323097001752 putative binding site; other site 323097001753 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 323097001754 Catalytic site [active] 323097001755 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 323097001756 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 323097001757 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 323097001758 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 323097001759 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 323097001760 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 323097001761 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00154 323097001762 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 323097001763 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 323097001764 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 323097001765 Subunit I/III interface [polypeptide binding]; other site 323097001766 D-pathway; other site 323097001767 Subunit I/VIIc interface [polypeptide binding]; other site 323097001768 Subunit I/IV interface [polypeptide binding]; other site 323097001769 Subunit I/II interface [polypeptide binding]; other site 323097001770 Low-spin heme (heme a) binding site [chemical binding]; other site 323097001771 Subunit I/VIIa interface [polypeptide binding]; other site 323097001772 Subunit I/VIa interface [polypeptide binding]; other site 323097001773 Dimer interface; other site 323097001774 Putative water exit pathway; other site 323097001775 Binuclear center (heme a3/CuB) [ion binding]; other site 323097001776 K-pathway; other site 323097001777 Subunit I/Vb interface [polypeptide binding]; other site 323097001778 Putative proton exit pathway; other site 323097001779 Subunit I/VIb interface; other site 323097001780 Subunit I/VIc interface [polypeptide binding]; other site 323097001781 Electron transfer pathway; other site 323097001782 Subunit I/VIIIb interface [polypeptide binding]; other site 323097001783 Subunit I/VIIb interface [polypeptide binding]; other site 323097001784 UbiA prenyltransferase family; Region: UbiA; cl00337 323097001785 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 323097001786 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 323097001787 Subunit III/VIIa interface [polypeptide binding]; other site 323097001788 Phospholipid binding site [chemical binding]; other site 323097001789 Subunit I/III interface [polypeptide binding]; other site 323097001790 Subunit III/VIb interface [polypeptide binding]; other site 323097001791 Subunit III/VIa interface; other site 323097001792 Subunit III/Vb interface [polypeptide binding]; other site 323097001793 Protein of unknown function (DUF983); Region: DUF983; cl02211 323097001794 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 323097001795 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 323097001796 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097001797 catalytic residue [active] 323097001798 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 323097001799 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 323097001800 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 323097001801 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 323097001802 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 323097001803 F0F1 ATP synthase subunit B; Provisional; Region: PRK14475 323097001804 Plant ATP synthase F0; Region: YMF19; cl07975 323097001805 Plant ATP synthase F0; Region: YMF19; cl07975 323097001806 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 323097001807 ATP synthase subunit C; Region: ATP-synt_C; cl00466 323097001808 ATP synthase A chain; Region: ATP-synt_A; cl00413 323097001809 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 323097001810 BA14K-like protein; Region: BA14K; pfam07886 323097001811 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 323097001812 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097001813 active site 323097001814 phosphorylation site [posttranslational modification] 323097001815 intermolecular recognition site; other site 323097001816 dimerization interface [polypeptide binding]; other site 323097001817 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 323097001818 DNA binding residues [nucleotide binding] 323097001819 dimerization interface [polypeptide binding]; other site 323097001820 Sodium:solute symporter family; Region: SSF; cl00456 323097001821 PAS fold; Region: PAS_7; pfam12860 323097001822 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 323097001823 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 323097001824 ATP binding site [chemical binding]; other site 323097001825 Mg2+ binding site [ion binding]; other site 323097001826 G-X-G motif; other site 323097001827 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 323097001828 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097001829 active site 323097001830 phosphorylation site [posttranslational modification] 323097001831 intermolecular recognition site; other site 323097001832 dimerization interface [polypeptide binding]; other site 323097001833 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 323097001834 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 323097001835 substrate-cofactor binding pocket; other site 323097001836 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097001837 catalytic residue [active] 323097001838 biotin synthase; Region: bioB; TIGR00433 323097001839 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 323097001840 FeS/SAM binding site; other site 323097001841 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 323097001842 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 323097001843 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 323097001844 catalytic residues [active] 323097001845 catalytic nucleophile [active] 323097001846 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 323097001847 DNA binding site [nucleotide binding] 323097001848 Int/Topo IB signature motif; other site 323097001849 active site 323097001850 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 323097001851 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 323097001852 hinge; other site 323097001853 active site 323097001854 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 323097001855 histidinol dehydrogenase; Region: hisD; TIGR00069 323097001856 NAD binding site [chemical binding]; other site 323097001857 dimerization interface [polypeptide binding]; other site 323097001858 product binding site; other site 323097001859 substrate binding site [chemical binding]; other site 323097001860 zinc binding site [ion binding]; other site 323097001861 catalytic residues [active] 323097001862 Uncharacterized protein family (UPF0262); Region: UPF0262; cl11489 323097001863 Low molecular weight phosphatase family; Region: LMWPc; cd00115 323097001864 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 323097001865 active site 323097001866 DDE superfamily endonuclease; Region: DDE_5; cl02413 323097001867 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097001868 Maf-like protein; Region: Maf; pfam02545 323097001869 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 323097001870 active site 323097001871 dimer interface [polypeptide binding]; other site 323097001872 Domain of unknown function (DUF329); Region: DUF329; cl01144 323097001873 integrase; Provisional; Region: PRK09692 323097001874 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 323097001875 active site 323097001876 Int/Topo IB signature motif; other site 323097001877 AAA-like domain; Region: AAA_10; pfam12846 323097001878 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 323097001879 AAA-like domain; Region: AAA_10; pfam12846 323097001880 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 323097001881 HNH endonuclease; Region: HNH_3; pfam13392 323097001882 DNA primase (bacterial type) [DNA replication, recombination, and repair]; Region: DnaG; COG0358 323097001883 YopX protein; Region: YopX; cl09859 323097001884 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 323097001885 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 323097001886 Endodeoxyribonuclease RusA; Region: RusA; cl01885 323097001887 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 323097001888 Helix-turn-helix domains; Region: HTH; cl00088 323097001889 DNA binding residues [nucleotide binding] 323097001890 Integrase core domain; Region: rve; cl01316 323097001891 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 323097001892 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 323097001893 Walker A motif; other site 323097001894 ATP binding site [chemical binding]; other site 323097001895 Walker B motif; other site 323097001896 arginine finger; other site 323097001897 NinB protein; Region: NinB; cl14671 323097001898 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 323097001899 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 323097001900 DNA binding site [nucleotide binding] 323097001901 Int/Topo IB signature motif; other site 323097001902 active site 323097001903 catalytic residues [active] 323097001904 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 323097001905 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 323097001906 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 323097001907 active site 323097001908 substrate binding site [chemical binding]; other site 323097001909 catalytic site [active] 323097001910 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 323097001911 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 323097001912 Phage Terminase; Region: Terminase_1; pfam03354 323097001913 Phage terminase, small subunit; Region: Terminase_4; cl01525 323097001914 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 323097001915 Phage capsid family; Region: Phage_capsid; pfam05065 323097001916 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 323097001917 Phage-related protein [Function unknown]; Region: COG4695; cl01923 323097001918 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 323097001919 AAA domain; Region: AAA_25; pfam13481 323097001920 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097001921 Walker A motif; other site 323097001922 ATP binding site [chemical binding]; other site 323097001923 Walker B motif; other site 323097001924 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 323097001925 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 323097001926 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 323097001927 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 323097001928 Walker A/P-loop; other site 323097001929 ATP binding site [chemical binding]; other site 323097001930 Q-loop/lid; other site 323097001931 ABC transporter signature motif; other site 323097001932 Walker B; other site 323097001933 D-loop; other site 323097001934 H-loop/switch region; other site 323097001935 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 323097001936 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 323097001937 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 323097001938 dimer interface [polypeptide binding]; other site 323097001939 active site residues [active] 323097001940 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 323097001941 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 323097001942 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 323097001943 dimer interface [polypeptide binding]; other site 323097001944 phosphorylation site [posttranslational modification] 323097001945 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 323097001946 ATP binding site [chemical binding]; other site 323097001947 Mg2+ binding site [ion binding]; other site 323097001948 G-X-G motif; other site 323097001949 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097001950 active site 323097001951 phosphorylation site [posttranslational modification] 323097001952 intermolecular recognition site; other site 323097001953 dimerization interface [polypeptide binding]; other site 323097001954 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 323097001955 TM-ABC transporter signature motif; other site 323097001956 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 323097001957 TM-ABC transporter signature motif; other site 323097001958 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 323097001959 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 323097001960 putative ligand binding site [chemical binding]; other site 323097001961 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 323097001962 heme-binding site [chemical binding]; other site 323097001963 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323097001964 dimer interface [polypeptide binding]; other site 323097001965 putative CheW interface [polypeptide binding]; other site 323097001966 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 323097001967 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 323097001968 Walker A/P-loop; other site 323097001969 ATP binding site [chemical binding]; other site 323097001970 Q-loop/lid; other site 323097001971 ABC transporter signature motif; other site 323097001972 Walker B; other site 323097001973 D-loop; other site 323097001974 H-loop/switch region; other site 323097001975 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 323097001976 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 323097001977 Walker A/P-loop; other site 323097001978 ATP binding site [chemical binding]; other site 323097001979 Q-loop/lid; other site 323097001980 ABC transporter signature motif; other site 323097001981 Walker B; other site 323097001982 D-loop; other site 323097001983 H-loop/switch region; other site 323097001984 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 323097001985 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 323097001986 substrate binding site [chemical binding]; other site 323097001987 oxyanion hole (OAH) forming residues; other site 323097001988 trimer interface [polypeptide binding]; other site 323097001989 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097001990 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 323097001991 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 323097001992 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 323097001993 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 323097001994 dimer interface [polypeptide binding]; other site 323097001995 active site 323097001996 glycerol kinase; Provisional; Region: glpK; PRK00047 323097001997 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 323097001998 N- and C-terminal domain interface [polypeptide binding]; other site 323097001999 active site 323097002000 MgATP binding site [chemical binding]; other site 323097002001 catalytic site [active] 323097002002 metal binding site [ion binding]; metal-binding site 323097002003 glycerol binding site [chemical binding]; other site 323097002004 homotetramer interface [polypeptide binding]; other site 323097002005 homodimer interface [polypeptide binding]; other site 323097002006 FBP binding site [chemical binding]; other site 323097002007 protein IIAGlc interface [polypeptide binding]; other site 323097002008 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 323097002009 active site clefts [active] 323097002010 zinc binding site [ion binding]; other site 323097002011 dimer interface [polypeptide binding]; other site 323097002012 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 323097002013 PAS domain; Region: PAS_9; pfam13426 323097002014 putative active site [active] 323097002015 heme pocket [chemical binding]; other site 323097002016 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 323097002017 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 323097002018 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 323097002019 substrate binding pocket [chemical binding]; other site 323097002020 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 323097002021 B12 binding site [chemical binding]; other site 323097002022 cobalt ligand [ion binding]; other site 323097002023 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 323097002024 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 323097002025 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 323097002026 FAD binding site [chemical binding]; other site 323097002027 prephenate dehydratase; Provisional; Region: PRK11899 323097002028 Prephenate dehydratase; Region: PDT; pfam00800 323097002029 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 323097002030 putative L-Phe binding site [chemical binding]; other site 323097002031 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 protein; Region: CSP_CDS; cd04458 323097002032 DNA-binding site [nucleotide binding]; DNA binding site 323097002033 RNA-binding motif; other site 323097002034 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 323097002035 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 323097002036 Ligand binding site; other site 323097002037 oligomer interface; other site 323097002038 Cytochrome c; Region: Cytochrom_C; cl11414 323097002039 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 323097002040 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 323097002041 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 323097002042 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 323097002043 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 323097002044 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 323097002045 dimer interface [polypeptide binding]; other site 323097002046 conserved gate region; other site 323097002047 putative PBP binding loops; other site 323097002048 ABC-ATPase subunit interface; other site 323097002049 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 323097002050 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 323097002051 dimer interface [polypeptide binding]; other site 323097002052 conserved gate region; other site 323097002053 putative PBP binding loops; other site 323097002054 ABC-ATPase subunit interface; other site 323097002055 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 323097002056 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 323097002057 Walker A/P-loop; other site 323097002058 ATP binding site [chemical binding]; other site 323097002059 Q-loop/lid; other site 323097002060 ABC transporter signature motif; other site 323097002061 Walker B; other site 323097002062 D-loop; other site 323097002063 H-loop/switch region; other site 323097002064 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 323097002065 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 323097002066 Walker A/P-loop; other site 323097002067 ATP binding site [chemical binding]; other site 323097002068 Q-loop/lid; other site 323097002069 ABC transporter signature motif; other site 323097002070 Walker B; other site 323097002071 D-loop; other site 323097002072 H-loop/switch region; other site 323097002073 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 323097002074 NlpC/P60 family; Region: NLPC_P60; cl11438 323097002075 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 323097002076 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 323097002077 interface (dimer of trimers) [polypeptide binding]; other site 323097002078 Substrate-binding/catalytic site; other site 323097002079 Zn-binding sites [ion binding]; other site 323097002080 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 323097002081 TPR motif; other site 323097002082 binding surface 323097002083 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323097002084 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 323097002085 TPR motif; other site 323097002086 binding surface 323097002087 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 323097002088 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 323097002089 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 323097002090 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 323097002091 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 323097002092 ATP binding site [chemical binding]; other site 323097002093 Walker A motif; other site 323097002094 hexamer interface [polypeptide binding]; other site 323097002095 Walker B motif; other site 323097002096 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 323097002097 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 323097002098 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097002099 Type IV pili component [Cell motility and secretion]; Region: COG5461; cl02279 323097002100 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 323097002101 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 323097002102 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 323097002103 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 323097002104 SAF domain; Region: SAF; cl00555 323097002105 Flp/Fap pilin component; Region: Flp_Fap; cl01585 323097002106 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 323097002107 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 323097002108 TadE-like protein; Region: TadE; cl10688 323097002109 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 protein; Region: CSP_CDS; cd04458 323097002110 DNA-binding site [nucleotide binding]; DNA binding site 323097002111 RNA-binding motif; other site 323097002112 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 323097002113 rRNA binding site [nucleotide binding]; other site 323097002114 predicted 30S ribosome binding site; other site 323097002115 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 323097002116 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 323097002117 ATP binding site [chemical binding]; other site 323097002118 Mg++ binding site [ion binding]; other site 323097002119 motif III; other site 323097002120 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 323097002121 nucleotide binding region [chemical binding]; other site 323097002122 ATP-binding site [chemical binding]; other site 323097002123 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 323097002124 active site 323097002125 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 323097002126 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 323097002127 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 323097002128 P loop; other site 323097002129 GTP binding site [chemical binding]; other site 323097002130 Intracellular septation protein A; Region: IspA; cl01098 323097002131 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 323097002132 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 323097002133 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 323097002134 aconitate hydratase; Validated; Region: PRK09277 323097002135 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 323097002136 substrate binding site [chemical binding]; other site 323097002137 ligand binding site [chemical binding]; other site 323097002138 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 323097002139 substrate binding site [chemical binding]; other site 323097002140 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 323097002141 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097002142 Walker A/P-loop; other site 323097002143 ATP binding site [chemical binding]; other site 323097002144 Q-loop/lid; other site 323097002145 ABC transporter signature motif; other site 323097002146 Walker B; other site 323097002147 D-loop; other site 323097002148 H-loop/switch region; other site 323097002149 CcmB protein; Region: CcmB; cl01016 323097002150 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 323097002151 Heme exporter protein D (CcmD); Region: CcmD; cl11475 323097002152 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 323097002153 catalytic residues [active] 323097002154 central insert; other site 323097002155 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 323097002156 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 323097002157 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323097002158 putative ADP-binding pocket [chemical binding]; other site 323097002159 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 323097002160 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 323097002161 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 323097002162 Walker A/P-loop; other site 323097002163 ATP binding site [chemical binding]; other site 323097002164 Q-loop/lid; other site 323097002165 ABC transporter signature motif; other site 323097002166 Walker B; other site 323097002167 D-loop; other site 323097002168 H-loop/switch region; other site 323097002169 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 323097002170 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 323097002171 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 323097002172 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 323097002173 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 323097002174 putative substrate translocation pore; other site 323097002175 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 323097002176 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 323097002177 active site 323097002178 FMN binding site [chemical binding]; other site 323097002179 substrate binding site [chemical binding]; other site 323097002180 3Fe-4S cluster binding site [ion binding]; other site 323097002181 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 323097002182 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 323097002183 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 323097002184 Creatinine amidohydrolase; Region: Creatininase; cl00618 323097002185 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 323097002186 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 323097002187 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 323097002188 Walker A/P-loop; other site 323097002189 ATP binding site [chemical binding]; other site 323097002190 Q-loop/lid; other site 323097002191 ABC transporter signature motif; other site 323097002192 Walker B; other site 323097002193 D-loop; other site 323097002194 H-loop/switch region; other site 323097002195 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 323097002196 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 323097002197 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 323097002198 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097002199 hypothetical protein; Reviewed; Region: PRK00024 323097002200 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 323097002201 MPN+ (JAMM) motif; other site 323097002202 Zinc-binding site [ion binding]; other site 323097002203 methionine aminopeptidase; Provisional; Region: PRK12318 323097002204 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 323097002205 active site 323097002206 potassium/proton antiporter; Reviewed; Region: PRK05326 323097002207 Transporter associated domain; Region: CorC_HlyC; cl08393 323097002208 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097002209 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 323097002210 Walker A/P-loop; other site 323097002211 ATP binding site [chemical binding]; other site 323097002212 Q-loop/lid; other site 323097002213 ABC transporter signature motif; other site 323097002214 Walker B; other site 323097002215 D-loop; other site 323097002216 H-loop/switch region; other site 323097002217 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 323097002218 dimer interface [polypeptide binding]; other site 323097002219 conserved gate region; other site 323097002220 putative PBP binding loops; other site 323097002221 ABC-ATPase subunit interface; other site 323097002222 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 323097002223 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 323097002224 Penicillin-insensitive murein endopeptidase; Region: Peptidase_M74; cl01538 323097002225 GTP-binding protein LepA; Provisional; Region: PRK05433 323097002226 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 323097002227 G1 box; other site 323097002228 putative GEF interaction site [polypeptide binding]; other site 323097002229 GTP/Mg2+ binding site [chemical binding]; other site 323097002230 Switch I region; other site 323097002231 G2 box; other site 323097002232 G3 box; other site 323097002233 Switch II region; other site 323097002234 G4 box; other site 323097002235 G5 box; other site 323097002236 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 323097002237 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 323097002238 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 323097002239 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 323097002240 dimerization domain swap beta strand [polypeptide binding]; other site 323097002241 regulatory protein interface [polypeptide binding]; other site 323097002242 active site 323097002243 regulatory phosphorylation site [posttranslational modification]; other site 323097002244 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 323097002245 active pocket/dimerization site; other site 323097002246 active site 323097002247 phosphorylation site [posttranslational modification] 323097002248 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 323097002249 Hpr binding site; other site 323097002250 active site 323097002251 homohexamer subunit interaction site [polypeptide binding]; other site 323097002252 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 323097002253 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 323097002254 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323097002255 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 323097002256 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 323097002257 dimer interface [polypeptide binding]; other site 323097002258 phosphorylation site [posttranslational modification] 323097002259 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 323097002260 ATP binding site [chemical binding]; other site 323097002261 Mg2+ binding site [ion binding]; other site 323097002262 G-X-G motif; other site 323097002263 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 323097002264 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097002265 active site 323097002266 phosphorylation site [posttranslational modification] 323097002267 intermolecular recognition site; other site 323097002268 dimerization interface [polypeptide binding]; other site 323097002269 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 323097002270 DNA binding site [nucleotide binding] 323097002271 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 323097002272 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 323097002273 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 323097002274 active site 323097002275 substrate-binding site [chemical binding]; other site 323097002276 metal-binding site [ion binding] 323097002277 ATP binding site [chemical binding]; other site 323097002278 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 323097002279 Arginase family; Region: Arginase; cl00306 323097002280 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 323097002281 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 323097002282 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 323097002283 active site 323097002284 DNA binding site [nucleotide binding] 323097002285 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 323097002286 DNA binding site [nucleotide binding] 323097002287 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 323097002288 nucleotide binding site [chemical binding]; other site 323097002289 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 323097002290 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 323097002291 putative DNA binding site [nucleotide binding]; other site 323097002292 putative homodimer interface [polypeptide binding]; other site 323097002293 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323097002294 active site 323097002295 LysE type translocator; Region: LysE; cl00565 323097002296 5'-3' exonuclease; Region: 53EXOc; smart00475 323097002297 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 323097002298 active site 323097002299 metal binding site 1 [ion binding]; metal-binding site 323097002300 putative 5' ssDNA interaction site; other site 323097002301 metal binding site 3; metal-binding site 323097002302 metal binding site 2 [ion binding]; metal-binding site 323097002303 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 323097002304 putative DNA binding site [nucleotide binding]; other site 323097002305 putative metal binding site [ion binding]; other site 323097002306 DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]; Region: PolA; COG0749 323097002307 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 323097002308 active site 323097002309 substrate binding site [chemical binding]; other site 323097002310 catalytic site [active] 323097002311 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 323097002312 active site 323097002313 DNA binding site [nucleotide binding] 323097002314 catalytic site [active] 323097002315 OpgC protein; Region: OpgC_C; cl00792 323097002316 Acyltransferase family; Region: Acyl_transf_3; pfam01757 323097002317 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 323097002318 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 323097002319 ATP binding site [chemical binding]; other site 323097002320 putative Mg++ binding site [ion binding]; other site 323097002321 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 323097002322 nucleotide binding region [chemical binding]; other site 323097002323 ATP-binding site [chemical binding]; other site 323097002324 Helicase associated domain (HA2); Region: HA2; cl04503 323097002325 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 323097002326 MgtC family; Region: MgtC; pfam02308 323097002327 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 323097002328 catalytic motif [active] 323097002329 Catalytic residue [active] 323097002330 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 323097002331 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 323097002332 active site 323097002333 substrate binding site [chemical binding]; other site 323097002334 metal binding site [ion binding]; metal-binding site 323097002335 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 323097002336 Helix-turn-helix domains; Region: HTH; cl00088 323097002337 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 323097002338 Ribokinase-like subgroup B. Found in bacteria and plants, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_B; cd01945 323097002339 substrate binding site [chemical binding]; other site 323097002340 ATP binding site [chemical binding]; other site 323097002341 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 323097002342 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 323097002343 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 323097002344 Walker A motif; other site 323097002345 ATP binding site [chemical binding]; other site 323097002346 Walker B motif; other site 323097002347 arginine finger; other site 323097002348 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 323097002349 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 323097002350 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 323097002351 recombination protein RecR; Reviewed; Region: recR; PRK00076 323097002352 RecR protein; Region: RecR; pfam02132 323097002353 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 323097002354 tetramer interface [polypeptide binding]; other site 323097002355 putative active site [active] 323097002356 putative metal-binding site [ion binding]; other site 323097002357 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 323097002358 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 323097002359 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097002360 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 323097002361 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 323097002362 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 323097002363 S-adenosylmethionine binding site [chemical binding]; other site 323097002364 peptide chain release factor 1; Validated; Region: prfA; PRK00591 323097002365 RF-1 domain; Region: RF-1; cl02875 323097002366 RF-1 domain; Region: RF-1; cl02875 323097002367 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 323097002368 GAF domain; Region: GAF; cl15785 323097002369 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 323097002370 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 323097002371 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; cl09155 323097002372 aspartate kinase; Reviewed; Region: PRK06635 323097002373 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 323097002374 putative nucleotide binding site [chemical binding]; other site 323097002375 putative catalytic residues [active] 323097002376 putative Mg ion binding site [ion binding]; other site 323097002377 putative aspartate binding site [chemical binding]; other site 323097002378 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 323097002379 putative allosteric regulatory site; other site 323097002380 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 323097002381 putative allosteric regulatory residue; other site 323097002382 Bacterial PH domain; Region: DUF304; cl01348 323097002383 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 323097002384 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 323097002385 S-adenosylmethionine binding site [chemical binding]; other site 323097002386 EamA-like transporter family; Region: EamA; cl01037 323097002387 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 323097002388 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 323097002389 Predicted amidohydrolase [General function prediction only]; Region: COG0388 323097002390 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 323097002391 putative active site [active] 323097002392 catalytic triad [active] 323097002393 dimer interface [polypeptide binding]; other site 323097002394 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 323097002395 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323097002396 active site 323097002397 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097002398 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097002399 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 323097002400 active site 323097002401 8-oxo-dGMP binding site [chemical binding]; other site 323097002402 nudix motif; other site 323097002403 metal binding site [ion binding]; metal-binding site 323097002404 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 323097002405 heterotetramer interface [polypeptide binding]; other site 323097002406 active site pocket [active] 323097002407 cleavage site 323097002408 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 323097002409 PPIC-type PPIASE domain; Region: Rotamase; cl08278 323097002410 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 323097002411 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 323097002412 hypothetical protein; Provisional; Region: PRK02250 323097002413 SEC-C motif; Region: SEC-C; pfam02810 323097002414 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 323097002415 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 323097002416 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 323097002417 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 323097002418 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 323097002419 DNA binding site [nucleotide binding] 323097002420 Int/Topo IB signature motif; other site 323097002421 active site 323097002422 shikimate kinase; Provisional; Region: PRK13946 323097002423 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 323097002424 ADP binding site [chemical binding]; other site 323097002425 magnesium binding site [ion binding]; other site 323097002426 putative shikimate binding site; other site 323097002427 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 323097002428 active site 323097002429 dimer interface [polypeptide binding]; other site 323097002430 metal binding site [ion binding]; metal-binding site 323097002431 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 323097002432 Domain of unknown function DUF21; Region: DUF21; pfam01595 323097002433 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 323097002434 Transporter associated domain; Region: CorC_HlyC; cl08393 323097002435 PilZ domain; Region: PilZ; cl01260 323097002436 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; cl15419 323097002437 BolA-like protein; Region: BolA; cl00386 323097002438 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 323097002439 HSP70 interaction site [polypeptide binding]; other site 323097002440 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 323097002441 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 323097002442 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 323097002443 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 323097002444 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097002445 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 323097002446 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 323097002447 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 323097002448 metal ion-dependent adhesion site (MIDAS); other site 323097002449 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 323097002450 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 323097002451 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 323097002452 nucleophile elbow; other site 323097002453 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 323097002454 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 323097002455 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097002456 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 323097002457 nucleotide binding region [chemical binding]; other site 323097002458 ATP-binding site [chemical binding]; other site 323097002459 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 323097002460 RNA binding surface [nucleotide binding]; other site 323097002461 Ferredoxin [Energy production and conversion]; Region: COG1146 323097002462 4Fe-4S binding domain; Region: Fer4; cl02805 323097002463 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 323097002464 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 323097002465 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 323097002466 Peptidase family M48; Region: Peptidase_M48; cl12018 323097002467 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 323097002468 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 323097002469 Transposase domain (DUF772); Region: DUF772; cl15789 323097002470 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097002471 Transposase domain (DUF772); Region: DUF772; cl15789 323097002472 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 323097002473 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 323097002474 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 323097002475 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 323097002476 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 323097002477 GTPase CgtA; Reviewed; Region: obgE; PRK12299 323097002478 GTP1/OBG; Region: GTP1_OBG; pfam01018 323097002479 Obg GTPase; Region: Obg; cd01898 323097002480 G1 box; other site 323097002481 GTP/Mg2+ binding site [chemical binding]; other site 323097002482 Switch I region; other site 323097002483 G2 box; other site 323097002484 G3 box; other site 323097002485 Switch II region; other site 323097002486 G4 box; other site 323097002487 G5 box; other site 323097002488 gamma-glutamyl kinase; Provisional; Region: PRK05429 323097002489 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 323097002490 nucleotide binding site [chemical binding]; other site 323097002491 homotetrameric interface [polypeptide binding]; other site 323097002492 putative phosphate binding site [ion binding]; other site 323097002493 putative allosteric binding site; other site 323097002494 PUA domain; Region: PUA; cl00607 323097002495 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 323097002496 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 323097002497 putative catalytic cysteine [active] 323097002498 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 323097002499 active site 323097002500 (T/H)XGH motif; other site 323097002501 Oligomerisation domain; Region: Oligomerisation; cl00519 323097002502 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 323097002503 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 323097002504 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 323097002505 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 323097002506 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 323097002507 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 323097002508 protein binding site [polypeptide binding]; other site 323097002509 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 323097002510 Catalytic dyad [active] 323097002511 Divergent polysaccharide deacetylase; Region: Polysacc_deac_2; cl04721 323097002512 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 323097002513 putative active site [active] 323097002514 Ap4A binding site [chemical binding]; other site 323097002515 nudix motif; other site 323097002516 putative metal binding site [ion binding]; other site 323097002517 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13448 323097002518 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 323097002519 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 323097002520 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 323097002521 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 323097002522 alpha subunit interaction interface [polypeptide binding]; other site 323097002523 Walker A motif; other site 323097002524 ATP binding site [chemical binding]; other site 323097002525 Walker B motif; other site 323097002526 inhibitor binding site; inhibition site 323097002527 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 323097002528 OsmC-like protein; Region: OsmC; cl00767 323097002529 ATP synthase; Region: ATP-synt; cl00365 323097002530 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 323097002531 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 323097002532 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 323097002533 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 323097002534 beta subunit interaction interface [polypeptide binding]; other site 323097002535 Walker A motif; other site 323097002536 ATP binding site [chemical binding]; other site 323097002537 Walker B motif; other site 323097002538 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 323097002539 Plant ATP synthase F0; Region: YMF19; cl07975 323097002540 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 323097002541 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 323097002542 primosome assembly protein PriA; Validated; Region: PRK05580 323097002543 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 323097002544 ATP binding site [chemical binding]; other site 323097002545 putative Mg++ binding site [ion binding]; other site 323097002546 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097002547 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 323097002548 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 323097002549 DNA binding site [nucleotide binding] 323097002550 Int/Topo IB signature motif; other site 323097002551 active site 323097002552 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 323097002553 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097002554 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323097002555 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 323097002556 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 323097002557 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 323097002558 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 323097002559 E3 interaction surface; other site 323097002560 lipoyl attachment site [posttranslational modification]; other site 323097002561 e3 binding domain; Region: E3_binding; pfam02817 323097002562 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 323097002563 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 323097002564 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 323097002565 TPP-binding site [chemical binding]; other site 323097002566 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 323097002567 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 323097002568 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097002569 CoA-ligase; Region: Ligase_CoA; cl02894 323097002570 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 323097002571 ATP-grasp domain; Region: ATP-grasp_4; cl03087 323097002572 CoA-ligase; Region: Ligase_CoA; cl02894 323097002573 malate dehydrogenase; Reviewed; Region: PRK06223 323097002574 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 323097002575 NAD(P) binding site [chemical binding]; other site 323097002576 dimer interface [polypeptide binding]; other site 323097002577 tetramer (dimer of dimers) interface [polypeptide binding]; other site 323097002578 substrate binding site [chemical binding]; other site 323097002579 Predicted ATPase [General function prediction only]; Region: COG1485 323097002580 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097002581 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 323097002582 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 323097002583 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 323097002584 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 323097002585 active site 323097002586 oxyanion hole [active] 323097002587 switch loop; other site 323097002588 catalytic triad [active] 323097002589 ABC transporter; Region: ABC_tran; pfam00005 323097002590 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 323097002591 Q-loop/lid; other site 323097002592 ABC transporter signature motif; other site 323097002593 Walker B; other site 323097002594 D-loop; other site 323097002595 H-loop/switch region; other site 323097002596 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 323097002597 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 323097002598 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 323097002599 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 323097002600 ATP-dependent DNA ligase; Validated; Region: PRK09247 323097002601 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 323097002602 active site 323097002603 DNA binding site [nucleotide binding] 323097002604 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 323097002605 DNA binding site [nucleotide binding] 323097002606 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 323097002607 quinone interaction residues [chemical binding]; other site 323097002608 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 323097002609 active site 323097002610 catalytic residues [active] 323097002611 FMN binding site [chemical binding]; other site 323097002612 substrate binding site [chemical binding]; other site 323097002613 Protein of unknown function (DUF952); Region: DUF952; cl01393 323097002614 Predicted transcriptional regulator [Transcription]; Region: COG2932 323097002615 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 323097002616 Catalytic site [active] 323097002617 acetyl-CoA synthetase; Provisional; Region: PRK00174 323097002618 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 323097002619 AMP-binding enzyme; Region: AMP-binding; cl15778 323097002620 AMP-binding enzyme; Region: AMP-binding; cl15778 323097002621 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 323097002622 EVE domain; Region: EVE; cl00728 323097002623 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 323097002624 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097002625 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 323097002626 UGMP family protein; Validated; Region: PRK09604 323097002627 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; cl03189 323097002628 domain interfaces; other site 323097002629 active site 323097002630 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 323097002631 active site 323097002632 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 323097002633 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 323097002634 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 323097002635 HemY protein N-terminus; Region: HemY_N; pfam07219 323097002636 YcfA-like protein; Region: YcfA; cl00752 323097002637 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 323097002638 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 323097002639 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 323097002640 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 323097002641 catalytic residues [active] 323097002642 catalytic nucleophile [active] 323097002643 Recombinase; Region: Recombinase; pfam07508 323097002644 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 323097002645 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097002646 Helix-turn-helix domains; Region: HTH; cl00088 323097002647 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 323097002648 ParA-like protein; Provisional; Region: PHA02518 323097002649 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 323097002650 P-loop; other site 323097002651 Magnesium ion binding site [ion binding]; other site 323097002652 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 323097002653 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 323097002654 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 323097002655 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 323097002656 salt bridge; other site 323097002657 non-specific DNA binding site [nucleotide binding]; other site 323097002658 sequence-specific DNA binding site [nucleotide binding]; other site 323097002659 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 323097002660 non-specific DNA binding site [nucleotide binding]; other site 323097002661 salt bridge; other site 323097002662 sequence-specific DNA binding site [nucleotide binding]; other site 323097002663 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_c; cd10311 323097002664 putative active site [active] 323097002665 catalytic site [active] 323097002666 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 323097002667 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 323097002668 ATP binding site [chemical binding]; other site 323097002669 putative Mg++ binding site [ion binding]; other site 323097002670 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 323097002671 nucleotide binding region [chemical binding]; other site 323097002672 ATP-binding site [chemical binding]; other site 323097002673 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 323097002674 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097002675 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097002676 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097002677 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 323097002678 catalytic residues [active] 323097002679 catalytic nucleophile [active] 323097002680 Presynaptic Site I dimer interface [polypeptide binding]; other site 323097002681 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 323097002682 Synaptic Flat tetramer interface [polypeptide binding]; other site 323097002683 Synaptic Site I dimer interface [polypeptide binding]; other site 323097002684 Helix-turn-helix domains; Region: HTH; cl00088 323097002685 DNA-binding interface [nucleotide binding]; DNA binding site 323097002686 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 323097002687 DnaJ chaperone protein; Provisional; Region: PTZ00100 323097002688 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 323097002689 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097002690 Walker A motif; other site 323097002691 ATP binding site [chemical binding]; other site 323097002692 Walker B motif; other site 323097002693 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 323097002694 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 323097002695 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 323097002696 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 323097002697 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 323097002698 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 323097002699 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 323097002700 putative metal binding site [ion binding]; other site 323097002701 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 323097002702 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097002703 NAD(P) binding site [chemical binding]; other site 323097002704 active site 323097002705 YGGT family; Region: YGGT; cl00508 323097002706 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 323097002707 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 323097002708 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 323097002709 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 323097002710 homodimer interface [polypeptide binding]; other site 323097002711 NADP binding site [chemical binding]; other site 323097002712 substrate binding site [chemical binding]; other site 323097002713 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 323097002714 dimer interface [polypeptide binding]; other site 323097002715 substrate binding site [chemical binding]; other site 323097002716 metal binding sites [ion binding]; metal-binding site 323097002717 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323097002718 Coenzyme A binding pocket [chemical binding]; other site 323097002719 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 323097002720 catalytic triad [active] 323097002721 conserved cis-peptide bond; other site 323097002722 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097002723 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 323097002724 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097002725 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 323097002726 MutS domain I; Region: MutS_I; pfam01624 323097002727 MutS domain II; Region: MutS_II; pfam05188 323097002728 MutS family domain IV; Region: MutS_IV; pfam05190 323097002729 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 323097002730 Walker A/P-loop; other site 323097002731 ATP binding site [chemical binding]; other site 323097002732 Q-loop/lid; other site 323097002733 ABC transporter signature motif; other site 323097002734 Walker B; other site 323097002735 D-loop; other site 323097002736 H-loop/switch region; other site 323097002737 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 323097002738 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 323097002739 putative substrate translocation pore; other site 323097002740 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 323097002741 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097002742 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097002743 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 323097002744 Helix-turn-helix domains; Region: HTH; cl00088 323097002745 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 323097002746 metal binding site 2 [ion binding]; metal-binding site 323097002747 putative DNA binding helix; other site 323097002748 metal binding site 1 [ion binding]; metal-binding site 323097002749 dimer interface [polypeptide binding]; other site 323097002750 structural Zn2+ binding site [ion binding]; other site 323097002751 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 323097002752 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 323097002753 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 323097002754 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 323097002755 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 323097002756 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 323097002757 substrate binding pocket [chemical binding]; other site 323097002758 chain length determination region; other site 323097002759 substrate-Mg2+ binding site; other site 323097002760 catalytic residues [active] 323097002761 aspartate-rich region 1; other site 323097002762 active site lid residues [active] 323097002763 aspartate-rich region 2; other site 323097002764 Transglycosylase; Region: Transgly; cl07896 323097002765 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 323097002766 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323097002767 metal binding site [ion binding]; metal-binding site 323097002768 active site 323097002769 I-site; other site 323097002770 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 323097002771 Hexameric tyrosine-coordinated heme protein (HTHP); Region: HTHP; pfam11534 323097002772 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 323097002773 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 323097002774 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 323097002775 putative active site [active] 323097002776 putative metal binding site [ion binding]; other site 323097002777 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 323097002778 ligand binding site [chemical binding]; other site 323097002779 Predicted integral membrane protein [Function unknown]; Region: COG0392 323097002780 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 323097002781 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 323097002782 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 323097002783 dimer interface [polypeptide binding]; other site 323097002784 phosphorylation site [posttranslational modification] 323097002785 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 323097002786 ATP binding site [chemical binding]; other site 323097002787 Mg2+ binding site [ion binding]; other site 323097002788 G-X-G motif; other site 323097002789 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 323097002790 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 323097002791 dimer interface [polypeptide binding]; other site 323097002792 conserved gate region; other site 323097002793 putative PBP binding loops; other site 323097002794 ABC-ATPase subunit interface; other site 323097002795 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 323097002796 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 323097002797 dimer interface [polypeptide binding]; other site 323097002798 conserved gate region; other site 323097002799 putative PBP binding loops; other site 323097002800 ABC-ATPase subunit interface; other site 323097002801 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 323097002802 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 323097002803 Walker A/P-loop; other site 323097002804 ATP binding site [chemical binding]; other site 323097002805 Q-loop/lid; other site 323097002806 ABC transporter signature motif; other site 323097002807 Walker B; other site 323097002808 D-loop; other site 323097002809 H-loop/switch region; other site 323097002810 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 323097002811 PhoU domain; Region: PhoU; pfam01895 323097002812 PhoU domain; Region: PhoU; pfam01895 323097002813 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 323097002814 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097002815 active site 323097002816 phosphorylation site [posttranslational modification] 323097002817 intermolecular recognition site; other site 323097002818 dimerization interface [polypeptide binding]; other site 323097002819 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 323097002820 DNA binding site [nucleotide binding] 323097002821 GcrA cell cycle regulator; Region: GcrA; cl11564 323097002822 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 323097002823 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 323097002824 inhibitor-cofactor binding pocket; inhibition site 323097002825 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097002826 catalytic residue [active] 323097002827 ornithine carbamoyltransferase; Provisional; Region: PRK00779 323097002828 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 323097002829 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097002830 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 323097002831 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 323097002832 G1 box; other site 323097002833 putative GEF interaction site [polypeptide binding]; other site 323097002834 GTP/Mg2+ binding site [chemical binding]; other site 323097002835 Switch I region; other site 323097002836 G2 box; other site 323097002837 G3 box; other site 323097002838 Switch II region; other site 323097002839 G4 box; other site 323097002840 G5 box; other site 323097002841 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 323097002842 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 323097002843 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 323097002844 Helix-turn-helix domains; Region: HTH; cl00088 323097002845 Response regulator receiver domain; Region: Response_reg; pfam00072 323097002846 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097002847 active site 323097002848 phosphorylation site [posttranslational modification] 323097002849 intermolecular recognition site; other site 323097002850 dimerization interface [polypeptide binding]; other site 323097002851 NnrS protein; Region: NnrS; cl01258 323097002852 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 323097002853 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 323097002854 Cytochrome c; Region: Cytochrom_C; cl11414 323097002855 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 323097002856 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 323097002857 ligand binding site [chemical binding]; other site 323097002858 flexible hinge region; other site 323097002859 putative indolepyruvate oxidoreductase subunit B; Reviewed; Region: PRK08312 323097002860 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 323097002861 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097002862 NAD(P) binding site [chemical binding]; other site 323097002863 active site 323097002864 Helix-turn-helix domains; Region: HTH; cl00088 323097002865 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 323097002866 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 323097002867 MOFRL family; Region: MOFRL; pfam05161 323097002868 Peptidase family M23; Region: Peptidase_M23; pfam01551 323097002869 AIFL (apoptosis-inducing factor like) family, N-terminal Rieske domain; members of this family show similarity to human AIFL, containing an N-terminal Rieske domain and a C-terminal pyridine nucleotide-disulfide oxidoreductase domain (Pyr_redox). The...; Region: Rieske_AIFL_N; cd03478 323097002870 [2Fe-2S] cluster binding site [ion binding]; other site 323097002871 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 323097002872 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323097002873 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 323097002874 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 323097002875 active site 323097002876 DNA binding site [nucleotide binding] 323097002877 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 323097002878 Response regulator receiver domain; Region: Response_reg; pfam00072 323097002879 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097002880 active site 323097002881 phosphorylation site [posttranslational modification] 323097002882 intermolecular recognition site; other site 323097002883 dimerization interface [polypeptide binding]; other site 323097002884 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 323097002885 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 323097002886 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 323097002887 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097002888 Walker A/P-loop; other site 323097002889 ATP binding site [chemical binding]; other site 323097002890 Q-loop/lid; other site 323097002891 ABC transporter signature motif; other site 323097002892 Walker B; other site 323097002893 D-loop; other site 323097002894 H-loop/switch region; other site 323097002895 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 323097002896 FtsX-like permease family; Region: FtsX; cl15850 323097002897 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 323097002898 putative active site [active] 323097002899 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 323097002900 putative acyl-acceptor binding pocket; other site 323097002901 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 323097002902 putative active site pocket [active] 323097002903 dimerization interface [polypeptide binding]; other site 323097002904 putative catalytic residue [active] 323097002905 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 323097002906 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 323097002907 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097002908 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 323097002909 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 323097002910 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097002911 homodimer interface [polypeptide binding]; other site 323097002912 catalytic residue [active] 323097002913 hypothetical protein; Provisional; Region: PRK06034 323097002914 Chorismate mutase type II; Region: CM_2; cl00693 323097002915 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 323097002916 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 323097002917 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 323097002918 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 323097002919 S-adenosylmethionine binding site [chemical binding]; other site 323097002920 NlpC/P60 family; Region: NLPC_P60; cl11438 323097002921 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 323097002922 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 323097002923 MOSC domain; Region: MOSC; pfam03473 323097002924 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 323097002925 Clp amino terminal domain; Region: Clp_N; pfam02861 323097002926 Clp amino terminal domain; Region: Clp_N; pfam02861 323097002927 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 323097002928 Walker A motif; other site 323097002929 ATP binding site [chemical binding]; other site 323097002930 Walker B motif; other site 323097002931 arginine finger; other site 323097002932 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 323097002933 Walker A motif; other site 323097002934 ATP binding site [chemical binding]; other site 323097002935 Walker B motif; other site 323097002936 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 323097002937 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 323097002938 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 323097002939 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 323097002940 FAD binding pocket [chemical binding]; other site 323097002941 FAD binding motif [chemical binding]; other site 323097002942 catalytic residues [active] 323097002943 NAD binding pocket [chemical binding]; other site 323097002944 phosphate binding motif [ion binding]; other site 323097002945 beta-alpha-beta structure motif; other site 323097002946 sulfite reductase subunit beta; Provisional; Region: PRK13504 323097002947 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 323097002948 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 323097002949 O-succinylhomoserine (thiol)-lyase; Region: O_succ_thio_ly; TIGR02080 323097002950 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 323097002951 homodimer interface [polypeptide binding]; other site 323097002952 substrate-cofactor binding pocket; other site 323097002953 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097002954 catalytic residue [active] 323097002955 BA14K-like protein; Region: BA14K; pfam07886 323097002956 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097002957 Family description; Region: UvrD_C_2; cl15862 323097002958 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 323097002959 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 323097002960 Walker A motif; other site 323097002961 ATP binding site [chemical binding]; other site 323097002962 Walker B motif; other site 323097002963 arginine finger; other site 323097002964 Helix-turn-helix domains; Region: HTH; cl00088 323097002965 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 323097002966 flagellar assembly protein H; Validated; Region: fliH; PRK06032 323097002967 Flagellar assembly protein FliH; Region: FliH; pfam02108 323097002968 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 323097002969 MgtE intracellular N domain; Region: MgtE_N; cl15244 323097002970 FliG C-terminal domain; Region: FliG_C; pfam01706 323097002971 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 323097002972 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 323097002973 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 323097002974 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 323097002975 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 323097002976 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 323097002977 FlgD Ig-like domain; Region: FlgD_ig; cl15790 323097002978 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 323097002979 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 323097002980 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 323097002981 Ligand Binding Site [chemical binding]; other site 323097002982 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097002983 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 323097002984 S-adenosylmethionine binding site [chemical binding]; other site 323097002985 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 323097002986 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 323097002987 putative acyl-acceptor binding pocket; other site 323097002988 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 323097002989 Transposase domain (DUF772); Region: DUF772; cl15789 323097002990 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097002991 Transposase domain (DUF772); Region: DUF772; cl15789 323097002992 Uncharacterized ACR, YagE family COG1723; Region: DUF155; cl00751 323097002993 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4318 323097002994 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 323097002995 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 323097002996 Sulfate transporter family; Region: Sulfate_transp; cl15842 323097002997 Sulfate transporter family; Region: Sulfate_transp; cl15842 323097002998 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 323097002999 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 323097003000 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 323097003001 FMN binding site [chemical binding]; other site 323097003002 active site 323097003003 substrate binding site [chemical binding]; other site 323097003004 catalytic residue [active] 323097003005 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323097003006 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097003007 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097003008 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 323097003009 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323097003010 Coenzyme A binding pocket [chemical binding]; other site 323097003011 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 323097003012 metabolite-proton symporter; Region: 2A0106; TIGR00883 323097003013 putative substrate translocation pore; other site 323097003014 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 323097003015 Helix-turn-helix domains; Region: HTH; cl00088 323097003016 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097003017 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 323097003018 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097003019 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 323097003020 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 323097003021 Walker A/P-loop; other site 323097003022 ATP binding site [chemical binding]; other site 323097003023 Q-loop/lid; other site 323097003024 ABC transporter signature motif; other site 323097003025 Walker B; other site 323097003026 D-loop; other site 323097003027 H-loop/switch region; other site 323097003028 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 323097003029 ABC-2 type transporter; Region: ABC2_membrane; cl11417 323097003030 Helix-turn-helix domains; Region: HTH; cl00088 323097003031 Cupin domain; Region: Cupin_2; cl09118 323097003032 haemagglutination activity domain; Region: Haemagg_act; cl05436 323097003033 haemagglutination activity domain; Region: Haemagg_act; cl05436 323097003034 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 323097003035 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 323097003036 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 323097003037 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 323097003038 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 323097003039 Gram-negative bacterial tonB protein; Region: TonB; cl10048 323097003040 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 323097003041 General secretion pathway protein M; Region: GspM_II; pfam10741 323097003042 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 323097003043 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 323097003044 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 323097003045 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 323097003046 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 323097003047 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 323097003048 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 323097003049 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 323097003050 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 323097003051 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 323097003052 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 323097003053 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097003054 Walker A motif; other site 323097003055 ATP binding site [chemical binding]; other site 323097003056 Walker B motif; other site 323097003057 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 323097003058 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 323097003059 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 323097003060 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 323097003061 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 323097003062 Sel1 repeat; Region: Sel1; cl02723 323097003063 Sel1 repeat; Region: Sel1; cl02723 323097003064 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 323097003065 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 323097003066 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 323097003067 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 323097003068 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 323097003069 N-terminal plug; other site 323097003070 ligand-binding site [chemical binding]; other site 323097003071 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 323097003072 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 323097003073 Gram-negative bacterial tonB protein; Region: TonB; cl10048 323097003074 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 323097003075 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 323097003076 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097003077 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 323097003078 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 323097003079 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; cl00522 323097003080 dimerization interface [polypeptide binding]; other site 323097003081 active site 323097003082 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 323097003083 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 323097003084 FAD binding site [chemical binding]; other site 323097003085 substrate binding pocket [chemical binding]; other site 323097003086 catalytic base [active] 323097003087 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 323097003088 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 323097003089 LysR family transcriptional regulator; Provisional; Region: PRK14997 323097003090 Helix-turn-helix domains; Region: HTH; cl00088 323097003091 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 323097003092 putative effector binding pocket; other site 323097003093 putative dimerization interface [polypeptide binding]; other site 323097003094 Pirin-related protein [General function prediction only]; Region: COG1741 323097003095 Cupin domain; Region: Cupin_2; cl09118 323097003096 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 323097003097 putative acyl-CoA synthetase; Provisional; Region: PRK06018 323097003098 AMP-binding enzyme; Region: AMP-binding; cl15778 323097003099 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 323097003100 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 323097003101 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 323097003102 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 323097003103 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 323097003104 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 323097003105 classical (c) SDRs; Region: SDR_c; cd05233 323097003106 NAD(P) binding site [chemical binding]; other site 323097003107 active site 323097003108 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 323097003109 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 323097003110 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 323097003111 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 323097003112 HSP70 interaction site [polypeptide binding]; other site 323097003113 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 323097003114 substrate binding site [polypeptide binding]; other site 323097003115 dimer interface [polypeptide binding]; other site 323097003116 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 323097003117 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 323097003118 catalytic core [active] 323097003119 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 323097003120 Tetramer interface [polypeptide binding]; other site 323097003121 active site 323097003122 FMN-binding site [chemical binding]; other site 323097003123 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 323097003124 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 323097003125 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 323097003126 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323097003127 dimer interface [polypeptide binding]; other site 323097003128 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 323097003129 putative CheW interface [polypeptide binding]; other site 323097003130 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 323097003131 dimerization interface [polypeptide binding]; other site 323097003132 putative DNA binding site [nucleotide binding]; other site 323097003133 putative Zn2+ binding site [ion binding]; other site 323097003134 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 323097003135 TRAM domain; Region: TRAM; cl01282 323097003136 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; cl15754 323097003137 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 323097003138 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 323097003139 RNA binding surface [nucleotide binding]; other site 323097003140 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; cl15754 323097003141 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 323097003142 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 323097003143 TPP-binding site; other site 323097003144 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 323097003145 PYR/PP interface [polypeptide binding]; other site 323097003146 dimer interface [polypeptide binding]; other site 323097003147 TPP binding site [chemical binding]; other site 323097003148 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 323097003149 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 323097003150 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 323097003151 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 323097003152 enoyl-CoA hydratase; Provisional; Region: PRK06688 323097003153 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 323097003154 substrate binding site [chemical binding]; other site 323097003155 oxyanion hole (OAH) forming residues; other site 323097003156 trimer interface [polypeptide binding]; other site 323097003157 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 323097003158 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 323097003159 active site 323097003160 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 323097003161 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 323097003162 dimer interface [polypeptide binding]; other site 323097003163 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 323097003164 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 323097003165 Walker A motif; other site 323097003166 ATP binding site [chemical binding]; other site 323097003167 Walker B motif; other site 323097003168 arginine finger; other site 323097003169 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 323097003170 Helix-turn-helix domains; Region: HTH; cl00088 323097003171 DNA binding residues [nucleotide binding] 323097003172 Integrase core domain; Region: rve; cl01316 323097003173 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 323097003174 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 323097003175 putative active site [active] 323097003176 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097003177 beta-RFAP synthase; Region: beta_RFAP_syn; TIGR00144 323097003178 TIR domain; Region: TIR_2; cl15770 323097003179 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 323097003180 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 323097003181 catalytic residues [active] 323097003182 catalytic nucleophile [active] 323097003183 Presynaptic Site I dimer interface [polypeptide binding]; other site 323097003184 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 323097003185 Synaptic Flat tetramer interface [polypeptide binding]; other site 323097003186 Synaptic Site I dimer interface [polypeptide binding]; other site 323097003187 DNA binding site [nucleotide binding] 323097003188 Recombinase; Region: Recombinase; pfam07508 323097003189 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 323097003190 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 323097003191 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 323097003192 salt bridge; other site 323097003193 non-specific DNA binding site [nucleotide binding]; other site 323097003194 sequence-specific DNA binding site [nucleotide binding]; other site 323097003195 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 323097003196 Terminase-like family; Region: Terminase_6; pfam03237 323097003197 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 323097003198 ParB-like nuclease domain; Region: ParBc; cl02129 323097003199 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 323097003200 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097003201 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 323097003202 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 323097003203 tetramer interface [polypeptide binding]; other site 323097003204 heme binding pocket [chemical binding]; other site 323097003205 NADPH binding site [chemical binding]; other site 323097003206 Transposase domain (DUF772); Region: DUF772; cl15789 323097003207 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323097003208 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097003209 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097003210 Helix-turn-helix domains; Region: HTH; cl00088 323097003211 Winged helix-turn helix; Region: HTH_29; pfam13551 323097003212 Helix-turn-helix domains; Region: HTH; cl00088 323097003213 Integrase core domain; Region: rve; cl01316 323097003214 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 protein; Region: CSP_CDS; cd04458 323097003215 DNA-binding site [nucleotide binding]; DNA binding site 323097003216 RNA-binding motif; other site 323097003217 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 323097003218 Terminase-like family; Region: Terminase_6; pfam03237 323097003219 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 323097003220 Baseplate J-like protein; Region: Baseplate_J; cl01294 323097003221 Baseplate J-like protein; Region: Baseplate_J; cl01294 323097003222 Baseplate J-like protein; Region: Baseplate_J; cl01294 323097003223 Baseplate J-like protein; Region: Baseplate_J; cl01294 323097003224 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 323097003225 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 323097003226 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 323097003227 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 323097003228 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 323097003229 Walker A motif; other site 323097003230 ATP binding site [chemical binding]; other site 323097003231 Walker B motif; other site 323097003232 arginine finger; other site 323097003233 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 323097003234 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; cl12125 323097003235 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 323097003236 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 323097003237 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323097003238 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097003239 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097003240 Helix-turn-helix domains; Region: HTH; cl00088 323097003241 G8 domain; Region: G8; pfam10162 323097003242 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 323097003243 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 323097003244 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 323097003245 tetramer interface [polypeptide binding]; other site 323097003246 heme binding pocket [chemical binding]; other site 323097003247 NADPH binding site [chemical binding]; other site 323097003248 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 323097003249 PLD-like domain; Region: PLDc_2; pfam13091 323097003250 putative active site [active] 323097003251 catalytic site [active] 323097003252 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 323097003253 PLD-like domain; Region: PLDc_2; pfam13091 323097003254 putative active site [active] 323097003255 catalytic site [active] 323097003256 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 323097003257 putative catalytic site [active] 323097003258 putative metal binding site [ion binding]; other site 323097003259 putative phosphate binding site [ion binding]; other site 323097003260 Helix-turn-helix domains; Region: HTH; cl00088 323097003261 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 323097003262 putative effector binding pocket; other site 323097003263 putative dimerization interface [polypeptide binding]; other site 323097003264 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 323097003265 putative active site [active] 323097003266 putative catalytic site [active] 323097003267 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 323097003268 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 323097003269 putative hydrophobic ligand binding site [chemical binding]; other site 323097003270 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 323097003271 putative heme binding pocket [chemical binding]; other site 323097003272 integron integrase; Region: integrase_gron; TIGR02249 323097003273 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 323097003274 Int/Topo IB signature motif; other site 323097003275 FOG: CBS domain [General function prediction only]; Region: COG0517 323097003276 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 323097003277 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 323097003278 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 323097003279 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 323097003280 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 323097003281 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 323097003282 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 323097003283 Acetokinase family; Region: Acetate_kinase; cl01029 323097003284 propionate/acetate kinase; Provisional; Region: PRK12379 323097003285 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 323097003286 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 323097003287 NAD binding site [chemical binding]; other site 323097003288 homotetramer interface [polypeptide binding]; other site 323097003289 homodimer interface [polypeptide binding]; other site 323097003290 substrate binding site [chemical binding]; other site 323097003291 active site 323097003292 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 323097003293 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 323097003294 transcriptional regulator FixK; Provisional; Region: fixK; PRK09391 323097003295 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 323097003296 ligand binding site [chemical binding]; other site 323097003297 flexible hinge region; other site 323097003298 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 323097003299 putative switch regulator; other site 323097003300 non-specific DNA interactions [nucleotide binding]; other site 323097003301 DNA binding site [nucleotide binding] 323097003302 sequence specific DNA binding site [nucleotide binding]; other site 323097003303 putative cAMP binding site [chemical binding]; other site 323097003304 Helix-turn-helix domains; Region: HTH; cl00088 323097003305 Winged helix-turn helix; Region: HTH_29; pfam13551 323097003306 Helix-turn-helix domains; Region: HTH; cl00088 323097003307 Integrase core domain; Region: rve; cl01316 323097003308 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 323097003309 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097003310 active site 323097003311 phosphorylation site [posttranslational modification] 323097003312 intermolecular recognition site; other site 323097003313 dimerization interface [polypeptide binding]; other site 323097003314 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 323097003315 DNA binding residues [nucleotide binding] 323097003316 dimerization interface [polypeptide binding]; other site 323097003317 Response regulator receiver domain; Region: Response_reg; pfam00072 323097003318 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097003319 active site 323097003320 phosphorylation site [posttranslational modification] 323097003321 intermolecular recognition site; other site 323097003322 dimerization interface [polypeptide binding]; other site 323097003323 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 323097003324 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 323097003325 Sulfate transporter family; Region: Sulfate_transp; cl15842 323097003326 Sulfate transporter family; Region: Sulfate_transp; cl15842 323097003327 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 323097003328 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 323097003329 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 323097003330 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 323097003331 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 323097003332 dimer interface [polypeptide binding]; other site 323097003333 phosphorylation site [posttranslational modification] 323097003334 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 323097003335 ATP binding site [chemical binding]; other site 323097003336 Mg2+ binding site [ion binding]; other site 323097003337 G-X-G motif; other site 323097003338 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 323097003339 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 323097003340 Periplasmic nitrate reductase protein NapE; Region: NapE; cl01848 323097003341 Pyruvate formate lyase 1; Region: PFL1; cd01678 323097003342 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 323097003343 coenzyme A binding site [chemical binding]; other site 323097003344 active site 323097003345 catalytic residues [active] 323097003346 glycine loop; other site 323097003347 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 323097003348 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 323097003349 FeS/SAM binding site; other site 323097003350 Predicted permease [General function prediction only]; Region: COG2985 323097003351 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 323097003352 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; cl15357 323097003353 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; cl15357 323097003354 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 323097003355 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13448 323097003356 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 323097003357 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 323097003358 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 323097003359 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 323097003360 Protein of unknown function (DUF3223); Region: DUF3223; pfam11523 323097003361 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 323097003362 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 323097003363 Walker A motif; other site 323097003364 ATP binding site [chemical binding]; other site 323097003365 Walker B motif; other site 323097003366 arginine finger; other site 323097003367 Integrase core domain; Region: rve; cl01316 323097003368 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 323097003369 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 323097003370 FtsX-like permease family; Region: FtsX; cl15850 323097003371 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 323097003372 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 323097003373 Walker A/P-loop; other site 323097003374 ATP binding site [chemical binding]; other site 323097003375 Q-loop/lid; other site 323097003376 ABC transporter signature motif; other site 323097003377 Walker B; other site 323097003378 D-loop; other site 323097003379 H-loop/switch region; other site 323097003380 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323097003381 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097003382 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097003383 Surface antigen (SAG) superfamily; Provisional; Region: PTZ00366 323097003384 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 323097003385 NMT1-like family; Region: NMT1_2; cl15260 323097003386 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeD; cd03379 323097003387 active site clefts [active] 323097003388 zinc binding site [ion binding]; other site 323097003389 dimer interface [polypeptide binding]; other site 323097003390 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 323097003391 active site 323097003392 ADP/pyrophosphate binding site [chemical binding]; other site 323097003393 dimerization interface [polypeptide binding]; other site 323097003394 allosteric effector site; other site 323097003395 fructose-1,6-bisphosphate binding site; other site 323097003396 Ferritin-like domain; Region: Ferritin; pfam00210 323097003397 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 323097003398 dimerization interface [polypeptide binding]; other site 323097003399 DPS ferroxidase diiron center [ion binding]; other site 323097003400 ion pore; other site 323097003401 aconitate hydratase; Validated; Region: PRK09277 323097003402 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 323097003403 substrate binding site [chemical binding]; other site 323097003404 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 323097003405 ligand binding site [chemical binding]; other site 323097003406 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 323097003407 substrate binding site [chemical binding]; other site 323097003408 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323097003409 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 323097003410 active site 323097003411 metal binding site [ion binding]; metal-binding site 323097003412 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 323097003413 Moco binding site; other site 323097003414 metal coordination site [ion binding]; other site 323097003415 dimerization interface [polypeptide binding]; other site 323097003416 NnrS protein; Region: NnrS; cl01258 323097003417 maleylacetoacetate isomerase; Region: maiA; TIGR01262 323097003418 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 323097003419 C-terminal domain interface [polypeptide binding]; other site 323097003420 GSH binding site (G-site) [chemical binding]; other site 323097003421 putative dimer interface [polypeptide binding]; other site 323097003422 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 323097003423 dimer interface [polypeptide binding]; other site 323097003424 N-terminal domain interface [polypeptide binding]; other site 323097003425 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 323097003426 Cupin domain; Region: Cupin_2; cl09118 323097003427 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 323097003428 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 323097003429 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 323097003430 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097003431 fumarylacetoacetase; Region: PLN02856 323097003432 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 323097003433 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 323097003434 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 323097003435 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 323097003436 Phenylacetic acid degradation B; Region: PaaB; cl01371 323097003437 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 323097003438 Domain of unknown function DUF59; Region: DUF59; cl00941 323097003439 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 323097003440 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 323097003441 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 323097003442 FAD binding pocket [chemical binding]; other site 323097003443 FAD binding motif [chemical binding]; other site 323097003444 phosphate binding motif [ion binding]; other site 323097003445 beta-alpha-beta structure motif; other site 323097003446 NAD(p) ribose binding residues [chemical binding]; other site 323097003447 NAD binding pocket [chemical binding]; other site 323097003448 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 323097003449 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 323097003450 catalytic loop [active] 323097003451 iron binding site [ion binding]; other site 323097003452 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 323097003453 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 323097003454 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 323097003455 substrate binding site [chemical binding]; other site 323097003456 dimer interface [polypeptide binding]; other site 323097003457 NADP binding site [chemical binding]; other site 323097003458 catalytic residues [active] 323097003459 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 323097003460 substrate binding site [chemical binding]; other site 323097003461 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 323097003462 Helix-turn-helix domains; Region: HTH; cl00088 323097003463 AMP-binding enzyme; Region: AMP-binding; cl15778 323097003464 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 323097003465 CoenzymeA binding site [chemical binding]; other site 323097003466 subunit interaction site [polypeptide binding]; other site 323097003467 PHB binding site; other site 323097003468 enoyl-CoA hydratase; Provisional; Region: PRK08140 323097003469 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 323097003470 substrate binding site [chemical binding]; other site 323097003471 oxyanion hole (OAH) forming residues; other site 323097003472 trimer interface [polypeptide binding]; other site 323097003473 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 323097003474 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 323097003475 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 323097003476 haemagglutination activity domain; Region: Haemagg_act; cl05436 323097003477 haemagglutination activity domain; Region: Haemagg_act; cl05436 323097003478 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 323097003479 dimerization interface [polypeptide binding]; other site 323097003480 putative DNA binding site [nucleotide binding]; other site 323097003481 putative Zn2+ binding site [ion binding]; other site 323097003482 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 323097003483 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 323097003484 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 323097003485 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 323097003486 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 323097003487 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 323097003488 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 323097003489 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 323097003490 [4Fe-4S] binding site [ion binding]; other site 323097003491 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 323097003492 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 323097003493 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 323097003494 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 323097003495 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 323097003496 molybdopterin cofactor binding site; other site 323097003497 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 323097003498 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 323097003499 ABC-ATPase subunit interface; other site 323097003500 dimer interface [polypeptide binding]; other site 323097003501 putative PBP binding regions; other site 323097003502 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 323097003503 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 323097003504 Walker A/P-loop; other site 323097003505 ATP binding site [chemical binding]; other site 323097003506 Q-loop/lid; other site 323097003507 ABC transporter signature motif; other site 323097003508 Walker B; other site 323097003509 D-loop; other site 323097003510 H-loop/switch region; other site 323097003511 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 323097003512 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 323097003513 intersubunit interface [polypeptide binding]; other site 323097003514 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 323097003515 N-terminal plug; other site 323097003516 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 323097003517 ligand-binding site [chemical binding]; other site 323097003518 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 323097003519 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 323097003520 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 323097003521 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 323097003522 cell division protein ZipA; Provisional; Region: PRK03427 323097003523 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097003524 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323097003525 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 323097003526 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 323097003527 Walker A/P-loop; other site 323097003528 ATP binding site [chemical binding]; other site 323097003529 Q-loop/lid; other site 323097003530 ABC transporter signature motif; other site 323097003531 Walker B; other site 323097003532 D-loop; other site 323097003533 H-loop/switch region; other site 323097003534 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 323097003535 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 323097003536 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 323097003537 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 323097003538 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 323097003539 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 323097003540 N-terminal plug; other site 323097003541 ligand-binding site [chemical binding]; other site 323097003542 SpoVR family protein; Provisional; Region: PRK11767 323097003543 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 323097003544 Uncharacterized conserved protein [Function unknown]; Region: COG2718 323097003545 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 323097003546 PrkA family serine protein kinase; Provisional; Region: PRK15455 323097003547 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097003548 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 323097003549 GYD domain; Region: GYD; cl01743 323097003550 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 323097003551 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 323097003552 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 323097003553 Sulfatase; Region: Sulfatase; cl10460 323097003554 Dehydroquinate synthase (DHQS)-like. DHQS catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS-like2; cd08198 323097003555 active site 323097003556 metal binding site [ion binding]; metal-binding site 323097003557 UbiA prenyltransferase family; Region: UbiA; cl00337 323097003558 UbiA prenyltransferase family; Region: UbiA; cl00337 323097003559 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 323097003560 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 323097003561 Cytochrome c; Region: Cytochrom_C; cl11414 323097003562 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 323097003563 active site 323097003564 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323097003565 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097003566 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 323097003567 Glycoside hydrolase family 15, N-terminal domain; Region: GH15_N; cd07430 323097003568 Domain interface; other site 323097003569 glucan 1,4-alpha-glucosidase; Region: glucan_glucosid; TIGR01535 323097003570 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 323097003571 glutamate dehydrogenase; Provisional; Region: PRK09414 323097003572 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 323097003573 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 323097003574 NAD(P) binding site [chemical binding]; other site 323097003575 sensor protein QseC; Provisional; Region: PRK10337 323097003576 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 323097003577 dimer interface [polypeptide binding]; other site 323097003578 phosphorylation site [posttranslational modification] 323097003579 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 323097003580 ATP binding site [chemical binding]; other site 323097003581 Mg2+ binding site [ion binding]; other site 323097003582 G-X-G motif; other site 323097003583 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 323097003584 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097003585 active site 323097003586 phosphorylation site [posttranslational modification] 323097003587 intermolecular recognition site; other site 323097003588 dimerization interface [polypeptide binding]; other site 323097003589 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 323097003590 DNA binding site [nucleotide binding] 323097003591 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 323097003592 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 323097003593 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 323097003594 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 323097003595 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 323097003596 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 323097003597 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 323097003598 Family of unknown function (DUF490); Region: DUF490; pfam04357 323097003599 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 323097003600 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 323097003601 DNA binding site [nucleotide binding] 323097003602 catalytic residue [active] 323097003603 H2TH interface [polypeptide binding]; other site 323097003604 putative catalytic residues [active] 323097003605 turnover-facilitating residue; other site 323097003606 intercalation triad [nucleotide binding]; other site 323097003607 8OG recognition residue [nucleotide binding]; other site 323097003608 putative reading head residues; other site 323097003609 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 323097003610 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 323097003611 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 323097003612 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 323097003613 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 323097003614 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 323097003615 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 323097003616 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 323097003617 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 323097003618 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 323097003619 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 323097003620 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 323097003621 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 323097003622 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 323097003623 Phage Tail Collar Domain; Region: Collar; pfam07484 323097003624 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 323097003625 Phage Tail Collar Domain; Region: Collar; pfam07484 323097003626 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 323097003627 Phage Tail Collar Domain; Region: Collar; pfam07484 323097003628 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 323097003629 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 323097003630 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 323097003631 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 323097003632 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 323097003633 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 323097003634 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 323097003635 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 323097003636 catalytic residues [active] 323097003637 BNR repeat-like domain; Region: BNR_2; pfam13088 323097003638 BNR repeat-like domain; Region: BNR_2; pfam13088 323097003639 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 323097003640 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 323097003641 N-terminal plug; other site 323097003642 ligand-binding site [chemical binding]; other site 323097003643 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 323097003644 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 323097003645 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 323097003646 putative active site [active] 323097003647 putative metal binding residues [ion binding]; other site 323097003648 putative triphosphate binding site [ion binding]; other site 323097003649 signature motif; other site 323097003650 CHAD domain; Region: CHAD; cl10506 323097003651 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 323097003652 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 323097003653 protein binding site [polypeptide binding]; other site 323097003654 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 323097003655 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 323097003656 protein binding site [polypeptide binding]; other site 323097003657 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 323097003658 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 323097003659 DNA binding residues [nucleotide binding] 323097003660 dimerization interface [polypeptide binding]; other site 323097003661 putative chaperone; Provisional; Region: PRK11678 323097003662 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 323097003663 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 323097003664 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 323097003665 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 323097003666 RNA binding site [nucleotide binding]; other site 323097003667 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 323097003668 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; cl00159 323097003669 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 323097003670 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 323097003671 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 323097003672 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 323097003673 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 323097003674 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 323097003675 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323097003676 Helix-turn-helix domains; Region: HTH; cl00088 323097003677 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 323097003678 dimerization interface [polypeptide binding]; other site 323097003679 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 323097003680 Glutamine amidotransferase class-I; Region: GATase; pfam00117 323097003681 glutamine binding [chemical binding]; other site 323097003682 catalytic triad [active] 323097003683 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 323097003684 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 323097003685 chorismate binding enzyme; Region: Chorismate_bind; cl10555 323097003686 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 323097003687 PAS domain; Region: PAS_9; pfam13426 323097003688 putative active site [active] 323097003689 heme pocket [chemical binding]; other site 323097003690 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323097003691 dimer interface [polypeptide binding]; other site 323097003692 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 323097003693 putative CheW interface [polypeptide binding]; other site 323097003694 Helix-turn-helix domains; Region: HTH; cl00088 323097003695 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 323097003696 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 323097003697 P-loop; other site 323097003698 Magnesium ion binding site [ion binding]; other site 323097003699 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 323097003700 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 323097003701 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097003702 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). The cleavage...; Region: Peptidase_C39_like; cl00296 323097003703 putative active site [active] 323097003704 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 323097003705 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 323097003706 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097003707 Walker A/P-loop; other site 323097003708 ATP binding site [chemical binding]; other site 323097003709 Q-loop/lid; other site 323097003710 ABC transporter signature motif; other site 323097003711 Walker B; other site 323097003712 D-loop; other site 323097003713 H-loop/switch region; other site 323097003714 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 323097003715 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097003716 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097003717 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 323097003718 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 323097003719 Sel1 repeat; Region: Sel1; cl02723 323097003720 Sel1 repeat; Region: Sel1; cl02723 323097003721 Sel1 repeat; Region: Sel1; cl02723 323097003722 Sel1 repeat; Region: Sel1; cl02723 323097003723 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 323097003724 Sel1 repeat; Region: Sel1; cl02723 323097003725 Sel1 repeat; Region: Sel1; cl02723 323097003726 Sel1 repeat; Region: Sel1; cl02723 323097003727 Sel1 repeat; Region: Sel1; cl02723 323097003728 Rhamnan synthesis protein F; Region: RgpF; cl01529 323097003729 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 323097003730 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 323097003731 active site 323097003732 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 323097003733 TPR motif; other site 323097003734 Tetratricopeptide repeat; Region: TPR_16; pfam13432 323097003735 binding surface 323097003736 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 323097003737 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 323097003738 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097003739 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 323097003740 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097003741 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 323097003742 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 323097003743 NAD binding site [chemical binding]; other site 323097003744 substrate binding site [chemical binding]; other site 323097003745 homodimer interface [polypeptide binding]; other site 323097003746 active site 323097003747 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 323097003748 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 323097003749 substrate binding site; other site 323097003750 tetramer interface; other site 323097003751 Cupin domain; Region: Cupin_2; cl09118 323097003752 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 323097003753 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 323097003754 NADP binding site [chemical binding]; other site 323097003755 active site 323097003756 putative substrate binding site [chemical binding]; other site 323097003757 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 323097003758 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 323097003759 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 323097003760 Probable Catalytic site; other site 323097003761 metal-binding site 323097003762 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 323097003763 Probable Catalytic site; other site 323097003764 metal-binding site 323097003765 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323097003766 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 323097003767 putative ADP-binding pocket [chemical binding]; other site 323097003768 haloacid dehalogenase-like hydrolase family protein; Region: PLN02779 323097003769 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 323097003770 motif II; other site 323097003771 Helix-turn-helix domains; Region: HTH; cl00088 323097003772 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 323097003773 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097003774 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323097003775 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 323097003776 TPR motif; other site 323097003777 binding surface 323097003778 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323097003779 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 323097003780 binding surface 323097003781 TPR motif; other site 323097003782 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323097003783 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 323097003784 binding surface 323097003785 TPR motif; other site 323097003786 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323097003787 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323097003788 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323097003789 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 323097003790 TPR motif; other site 323097003791 binding surface 323097003792 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323097003793 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323097003794 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097003795 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 323097003796 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 323097003797 FMN binding site [chemical binding]; other site 323097003798 substrate binding site [chemical binding]; other site 323097003799 putative catalytic residue [active] 323097003800 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 323097003801 SlyX; Region: SlyX; cl01090 323097003802 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 323097003803 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 323097003804 active site residue [active] 323097003805 CsbD-like; Region: CsbD; cl15799 323097003806 Nitrate and nitrite sensing; Region: NIT; pfam08376 323097003807 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 323097003808 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 323097003809 dimerization interface [polypeptide binding]; other site 323097003810 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 323097003811 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 323097003812 dimer interface [polypeptide binding]; other site 323097003813 putative CheW interface [polypeptide binding]; other site 323097003814 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323097003815 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097003816 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097003817 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 323097003818 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 323097003819 Helix-turn-helix domains; Region: HTH; cl00088 323097003820 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 323097003821 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 323097003822 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 323097003823 active site 323097003824 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 323097003825 acetyl-CoA acetyltransferase; Provisional; Region: PRK08170 323097003826 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 323097003827 dimer interface [polypeptide binding]; other site 323097003828 active site 323097003829 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 323097003830 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 323097003831 substrate binding site [chemical binding]; other site 323097003832 oxyanion hole (OAH) forming residues; other site 323097003833 trimer interface [polypeptide binding]; other site 323097003834 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097003835 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 323097003836 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 323097003837 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 323097003838 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097003839 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 323097003840 lytic murein transglycosylase; Region: MltB_2; TIGR02283 323097003841 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 323097003842 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 323097003843 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 323097003844 Moco binding site; other site 323097003845 metal coordination site [ion binding]; other site 323097003846 Cytochrome c; Region: Cytochrom_C; cl11414 323097003847 Transposase domain (DUF772); Region: DUF772; cl15789 323097003848 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097003849 Transposase domain (DUF772); Region: DUF772; cl15789 323097003850 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 323097003851 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 323097003852 non-specific DNA binding site [nucleotide binding]; other site 323097003853 salt bridge; other site 323097003854 sequence-specific DNA binding site [nucleotide binding]; other site 323097003855 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 323097003856 Domain of unknown function (DUF955); Region: DUF955; cl01076 323097003857 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 323097003858 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 323097003859 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 323097003860 tetramer interface [polypeptide binding]; other site 323097003861 active site 323097003862 Mg2+/Mn2+ binding site [ion binding]; other site 323097003863 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 323097003864 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 323097003865 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 323097003866 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 323097003867 putative C-terminal domain interface [polypeptide binding]; other site 323097003868 putative GSH binding site (G-site) [chemical binding]; other site 323097003869 putative dimer interface [polypeptide binding]; other site 323097003870 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 323097003871 N-terminal domain interface [polypeptide binding]; other site 323097003872 dimer interface [polypeptide binding]; other site 323097003873 substrate binding pocket (H-site) [chemical binding]; other site 323097003874 aspartate aminotransferase; Provisional; Region: PRK05764 323097003875 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 323097003876 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097003877 homodimer interface [polypeptide binding]; other site 323097003878 catalytic residue [active] 323097003879 Protein of unknown function (DUF992); Region: DUF992; pfam06186 323097003880 Protein of unknown function (DUF992); Region: DUF992; pfam06186 323097003881 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 323097003882 elongation factor G; Reviewed; Region: PRK12740 323097003883 G1 box; other site 323097003884 putative GEF interaction site [polypeptide binding]; other site 323097003885 GTP/Mg2+ binding site [chemical binding]; other site 323097003886 Switch I region; other site 323097003887 G2 box; other site 323097003888 G3 box; other site 323097003889 Switch II region; other site 323097003890 G4 box; other site 323097003891 G5 box; other site 323097003892 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 323097003893 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 323097003894 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 323097003895 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 323097003896 putative transporter; Provisional; Region: PRK11660 323097003897 Sulfate transporter family; Region: Sulfate_transp; cl15842 323097003898 Sulfate transporter family; Region: Sulfate_transp; cl15842 323097003899 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 323097003900 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 323097003901 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 323097003902 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 323097003903 shikimate binding site; other site 323097003904 NAD(P) binding site [chemical binding]; other site 323097003905 FeoA domain; Region: FeoA; cl00838 323097003906 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 323097003907 ferrous iron transporter FeoB; Region: feoB; TIGR00437 323097003908 G1 box; other site 323097003909 GTP/Mg2+ binding site [chemical binding]; other site 323097003910 Switch I region; other site 323097003911 G2 box; other site 323097003912 G3 box; other site 323097003913 Switch II region; other site 323097003914 G4 box; other site 323097003915 G5 box; other site 323097003916 Nucleoside recognition; Region: Gate; cl00486 323097003917 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 323097003918 Nucleoside recognition; Region: Gate; cl00486 323097003919 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 323097003920 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 323097003921 active site 323097003922 substrate binding site [chemical binding]; other site 323097003923 FMN binding site [chemical binding]; other site 323097003924 putative catalytic residues [active] 323097003925 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 323097003926 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 323097003927 active site 323097003928 substrate binding site [chemical binding]; other site 323097003929 metal binding site [ion binding]; metal-binding site 323097003930 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 323097003931 Major Facilitator Superfamily; Region: MFS_1; pfam07690 323097003932 putative substrate translocation pore; other site 323097003933 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 323097003934 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 323097003935 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cd01494 323097003936 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323097003937 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 323097003938 catalytic residue [active] 323097003939 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 323097003940 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097003941 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 323097003942 putative L-serine binding site [chemical binding]; other site 323097003943 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 323097003944 putative deacylase active site [active] 323097003945 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 323097003946 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 323097003947 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 323097003948 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 323097003949 GDP-binding site [chemical binding]; other site 323097003950 ACT binding site; other site 323097003951 IMP binding site; other site 323097003952 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 323097003953 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 323097003954 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 323097003955 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 323097003956 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 323097003957 active site 323097003958 tetramer interface; other site 323097003959 Transglycosylase SLT domain; Region: SLT_2; pfam13406 323097003960 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 323097003961 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 323097003962 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 323097003963 active site 323097003964 oxyanion hole [active] 323097003965 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 323097003966 catalytic triad [active] 323097003967 Transposase domain (DUF772); Region: DUF772; cl15789 323097003968 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097003969 Transposase domain (DUF772); Region: DUF772; cl15789 323097003970 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 323097003971 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097003972 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 323097003973 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 323097003974 active site 323097003975 dimer interface [polypeptide binding]; other site 323097003976 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 323097003977 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 323097003978 active site 323097003979 FMN binding site [chemical binding]; other site 323097003980 substrate binding site [chemical binding]; other site 323097003981 3Fe-4S cluster binding site [ion binding]; other site 323097003982 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 323097003983 domain interface; other site 323097003984 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 323097003985 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 323097003986 putative dimer interface [polypeptide binding]; other site 323097003987 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 323097003988 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 323097003989 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 323097003990 active site 323097003991 N-formylglutamate amidohydrolase; Region: FGase; cl01522 323097003992 Response regulator receiver domain; Region: Response_reg; pfam00072 323097003993 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097003994 active site 323097003995 phosphorylation site [posttranslational modification] 323097003996 intermolecular recognition site; other site 323097003997 dimerization interface [polypeptide binding]; other site 323097003998 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 323097003999 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 323097004000 catalytic residues [active] 323097004001 catalytic nucleophile [active] 323097004002 Presynaptic Site I dimer interface [polypeptide binding]; other site 323097004003 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 323097004004 Synaptic Flat tetramer interface [polypeptide binding]; other site 323097004005 Synaptic Site I dimer interface [polypeptide binding]; other site 323097004006 DNA binding site [nucleotide binding] 323097004007 Recombinase; Region: Recombinase; pfam07508 323097004008 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 323097004009 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 323097004010 DEAD-like helicases superfamily; Region: DEXDc; smart00487 323097004011 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 323097004012 ATP binding site [chemical binding]; other site 323097004013 putative Mg++ binding site [ion binding]; other site 323097004014 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097004015 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 323097004016 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 323097004017 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 323097004018 Histidine kinase; Region: HisKA_2; cl06527 323097004019 Winged helix-turn helix; Region: HTH_29; pfam13551 323097004020 Helix-turn-helix domains; Region: HTH; cl00088 323097004021 Helix-turn-helix domains; Region: HTH; cl00088 323097004022 Integrase core domain; Region: rve; cl01316 323097004023 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 323097004024 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 323097004025 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 323097004026 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 323097004027 Histidine kinase; Region: HisKA_2; cl06527 323097004028 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 323097004029 putative transposase OrfB; Reviewed; Region: PHA02517 323097004030 HTH-like domain; Region: HTH_21; pfam13276 323097004031 Integrase core domain; Region: rve; cl01316 323097004032 Integrase core domain; Region: rve_3; cl15866 323097004033 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 323097004034 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 323097004035 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 323097004036 Fatty acid desaturase; Region: FA_desaturase; pfam00487 323097004037 putative di-iron ligands [ion binding]; other site 323097004038 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 323097004039 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 323097004040 Winged helix-turn helix; Region: HTH_29; pfam13551 323097004041 Helix-turn-helix domains; Region: HTH; cl00088 323097004042 Helix-turn-helix domains; Region: HTH; cl00088 323097004043 Winged helix-turn helix; Region: HTH_33; pfam13592 323097004044 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 323097004045 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 323097004046 ring oligomerisation interface [polypeptide binding]; other site 323097004047 ATP/Mg binding site [chemical binding]; other site 323097004048 stacking interactions; other site 323097004049 hinge regions; other site 323097004050 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 323097004051 oligomerisation interface [polypeptide binding]; other site 323097004052 mobile loop; other site 323097004053 roof hairpin; other site 323097004054 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 323097004055 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 323097004056 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 323097004057 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 323097004058 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; cl00159 323097004059 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 323097004060 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 323097004061 Cytochrome c; Region: Cytochrom_C; cl11414 323097004062 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 323097004063 Terminase-like family; Region: Terminase_6; pfam03237 323097004064 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 323097004065 Integrase core domain; Region: rve; cl01316 323097004066 Winged helix-turn helix; Region: HTH_29; pfam13551 323097004067 Helix-turn-helix domains; Region: HTH; cl00088 323097004068 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 323097004069 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 323097004070 NAD(P) binding site [chemical binding]; other site 323097004071 homodimer interface [polypeptide binding]; other site 323097004072 substrate binding site [chemical binding]; other site 323097004073 active site 323097004074 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 323097004075 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 323097004076 inhibitor-cofactor binding pocket; inhibition site 323097004077 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097004078 catalytic residue [active] 323097004079 pseudaminic acid synthase; Region: PseI; TIGR03586 323097004080 NeuB family; Region: NeuB; cl00496 323097004081 SAF domain; Region: SAF; cl00555 323097004082 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 323097004083 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 323097004084 motif II; other site 323097004085 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 323097004086 S-adenosylmethionine binding site [chemical binding]; other site 323097004087 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097004088 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 323097004089 ligand binding site; other site 323097004090 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 323097004091 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 323097004092 Walker A motif; other site 323097004093 ATP binding site [chemical binding]; other site 323097004094 Walker B motif; other site 323097004095 arginine finger; other site 323097004096 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 323097004097 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 323097004098 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097004099 Walker A/P-loop; other site 323097004100 ATP binding site [chemical binding]; other site 323097004101 Q-loop/lid; other site 323097004102 ABC transporter signature motif; other site 323097004103 Walker B; other site 323097004104 D-loop; other site 323097004105 H-loop/switch region; other site 323097004106 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 323097004107 dimer interface [polypeptide binding]; other site 323097004108 conserved gate region; other site 323097004109 putative PBP binding loops; other site 323097004110 ABC-ATPase subunit interface; other site 323097004111 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 323097004112 dimer interface [polypeptide binding]; other site 323097004113 conserved gate region; other site 323097004114 putative PBP binding loops; other site 323097004115 ABC-ATPase subunit interface; other site 323097004116 PAS fold; Region: PAS_4; pfam08448 323097004117 putative diguanylate cyclase; Provisional; Region: PRK09776 323097004118 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 323097004119 PAS fold; Region: PAS_3; pfam08447 323097004120 putative active site [active] 323097004121 heme pocket [chemical binding]; other site 323097004122 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 323097004123 Histidine kinase; Region: HisKA_2; cl06527 323097004124 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 323097004125 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 323097004126 binding surface 323097004127 TPR motif; other site 323097004128 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323097004129 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 323097004130 pyruvate kinase; Provisional; Region: PRK06247 323097004131 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; cl09155 323097004132 domain interfaces; other site 323097004133 active site 323097004134 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 323097004135 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 323097004136 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 323097004137 Peptidase M15; Region: Peptidase_M15_3; cl01194 323097004138 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK12323 323097004139 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 323097004140 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 323097004141 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097004142 active site 323097004143 phosphorylation site [posttranslational modification] 323097004144 intermolecular recognition site; other site 323097004145 dimerization interface [polypeptide binding]; other site 323097004146 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 323097004147 Walker A motif; other site 323097004148 ATP binding site [chemical binding]; other site 323097004149 Walker B motif; other site 323097004150 arginine finger; other site 323097004151 Helix-turn-helix domains; Region: HTH; cl00088 323097004152 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 323097004153 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 323097004154 active site 323097004155 Zn binding site [ion binding]; other site 323097004156 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 323097004157 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 323097004158 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 323097004159 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097004160 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097004161 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 323097004162 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 323097004163 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 323097004164 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 323097004165 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 323097004166 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 323097004167 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 323097004168 amphipathic channel; other site 323097004169 Asn-Pro-Ala signature motifs; other site 323097004170 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 323097004171 ATP-grasp domain; Region: ATP-grasp_4; cl03087 323097004172 AIR carboxylase; Region: AIRC; cl00310 323097004173 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323097004174 metal binding site [ion binding]; metal-binding site 323097004175 active site 323097004176 I-site; other site 323097004177 Protein of unknown function (DUF465); Region: DUF465; cl01070 323097004178 Protein of unknown function (DUF465); Region: DUF465; cl01070 323097004179 Predicted dehydrogenase [General function prediction only]; Region: COG0579 323097004180 PAS fold; Region: PAS_7; pfam12860 323097004181 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 323097004182 PAS fold; Region: PAS_4; pfam08448 323097004183 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 323097004184 PAS fold; Region: PAS_4; pfam08448 323097004185 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323097004186 metal binding site [ion binding]; metal-binding site 323097004187 active site 323097004188 I-site; other site 323097004189 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 323097004190 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 323097004191 dimer interface [polypeptide binding]; other site 323097004192 conserved gate region; other site 323097004193 putative PBP binding loops; other site 323097004194 ABC-ATPase subunit interface; other site 323097004195 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 323097004196 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 323097004197 dimer interface [polypeptide binding]; other site 323097004198 conserved gate region; other site 323097004199 putative PBP binding loops; other site 323097004200 ABC-ATPase subunit interface; other site 323097004201 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 323097004202 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 323097004203 AsmA-like C-terminal region; Region: AsmA_2; cl15864 323097004204 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 323097004205 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 323097004206 K+-transporting ATPase, c chain; Region: KdpC; cl00944 323097004207 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 323097004208 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 323097004209 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 323097004210 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 323097004211 dimer interface [polypeptide binding]; other site 323097004212 phosphorylation site [posttranslational modification] 323097004213 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 323097004214 ATP binding site [chemical binding]; other site 323097004215 Mg2+ binding site [ion binding]; other site 323097004216 G-X-G motif; other site 323097004217 Phasin protein; Region: Phasin_2; cl11491 323097004218 Phasin protein; Region: Phasin_2; cl11491 323097004219 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 323097004220 Uncharacterized conserved protein [Function unknown]; Region: COG5361 323097004221 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 323097004222 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 323097004223 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 323097004224 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 323097004225 Cupin domain; Region: Cupin_2; cl09118 323097004226 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 323097004227 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 323097004228 ligand binding site [chemical binding]; other site 323097004229 flexible hinge region; other site 323097004230 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 323097004231 putative switch regulator; other site 323097004232 non-specific DNA interactions [nucleotide binding]; other site 323097004233 DNA binding site [nucleotide binding] 323097004234 sequence specific DNA binding site [nucleotide binding]; other site 323097004235 putative cAMP binding site [chemical binding]; other site 323097004236 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 323097004237 Helix-turn-helix domains; Region: HTH; cl00088 323097004238 Helix-turn-helix domains; Region: HTH; cl00088 323097004239 Helix-turn-helix domains; Region: HTH; cl00088 323097004240 Transposase domain (DUF772); Region: DUF772; cl15789 323097004241 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097004242 CsbD-like; Region: CsbD; cl15799 323097004243 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 323097004244 amidase catalytic site [active] 323097004245 Zn binding residues [ion binding]; other site 323097004246 substrate binding site [chemical binding]; other site 323097004247 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 323097004248 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 323097004249 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097004250 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 323097004251 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 323097004252 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 323097004253 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 323097004254 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 323097004255 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 323097004256 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 323097004257 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 323097004258 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 323097004259 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 323097004260 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 323097004261 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 323097004262 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 323097004263 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 323097004264 Mg++ binding site [ion binding]; other site 323097004265 putative catalytic motif [active] 323097004266 putative substrate binding site [chemical binding]; other site 323097004267 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 323097004268 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097004269 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 323097004270 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 323097004271 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 323097004272 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 323097004273 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 323097004274 active site 323097004275 homodimer interface [polypeptide binding]; other site 323097004276 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 323097004277 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 323097004278 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 323097004279 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 323097004280 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 323097004281 FAD binding domain; Region: FAD_binding_4; pfam01565 323097004282 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 323097004283 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 323097004284 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 323097004285 ATP-grasp domain; Region: ATP-grasp_4; cl03087 323097004286 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 323097004287 Cell division protein FtsQ; Region: FtsQ; pfam03799 323097004288 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 323097004289 Cell division protein FtsA; Region: FtsA; cl11496 323097004290 Cell division protein FtsA; Region: FtsA; cl11496 323097004291 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 323097004292 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 323097004293 nucleotide binding site [chemical binding]; other site 323097004294 SulA interaction site; other site 323097004295 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 323097004296 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 323097004297 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 323097004298 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 323097004299 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 323097004300 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 323097004301 Walker A/P-loop; other site 323097004302 ATP binding site [chemical binding]; other site 323097004303 Q-loop/lid; other site 323097004304 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 323097004305 ABC transporter signature motif; other site 323097004306 Walker B; other site 323097004307 D-loop; other site 323097004308 H-loop/switch region; other site 323097004309 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 323097004310 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 323097004311 nucleotide binding pocket [chemical binding]; other site 323097004312 K-X-D-G motif; other site 323097004313 catalytic site [active] 323097004314 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 323097004315 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 323097004316 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 323097004317 Dimer interface [polypeptide binding]; other site 323097004318 BRCT sequence motif; other site 323097004319 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 323097004320 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 323097004321 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 323097004322 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097004323 Walker A/P-loop; other site 323097004324 ATP binding site [chemical binding]; other site 323097004325 Q-loop/lid; other site 323097004326 ABC transporter signature motif; other site 323097004327 Walker B; other site 323097004328 D-loop; other site 323097004329 H-loop/switch region; other site 323097004330 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 323097004331 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 323097004332 NAD binding site [chemical binding]; other site 323097004333 homodimer interface [polypeptide binding]; other site 323097004334 active site 323097004335 substrate binding site [chemical binding]; other site 323097004336 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 323097004337 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 323097004338 putative active site [active] 323097004339 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 323097004340 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 323097004341 active site 323097004342 motif I; other site 323097004343 motif II; other site 323097004344 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 323097004345 dimer interface [polypeptide binding]; other site 323097004346 active site 323097004347 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 323097004348 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 323097004349 putative active site [active] 323097004350 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 323097004351 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 323097004352 NADP binding site [chemical binding]; other site 323097004353 homopentamer interface [polypeptide binding]; other site 323097004354 substrate binding site [chemical binding]; other site 323097004355 active site 323097004356 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 323097004357 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 323097004358 putative ribose interaction site [chemical binding]; other site 323097004359 putative ADP binding site [chemical binding]; other site 323097004360 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 323097004361 active site 323097004362 nucleotide binding site [chemical binding]; other site 323097004363 HIGH motif; other site 323097004364 KMSKS motif; other site 323097004365 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 323097004366 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 323097004367 NAD(P) binding site [chemical binding]; other site 323097004368 homodimer interface [polypeptide binding]; other site 323097004369 substrate binding site [chemical binding]; other site 323097004370 active site 323097004371 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 323097004372 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 323097004373 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 323097004374 putative NAD(P) binding site [chemical binding]; other site 323097004375 active site 323097004376 putative substrate binding site [chemical binding]; other site 323097004377 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 323097004378 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 323097004379 Substrate binding site; other site 323097004380 Cupin domain; Region: Cupin_2; cl09118 323097004381 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 323097004382 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097004383 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 323097004384 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 323097004385 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 323097004386 inhibitor-cofactor binding pocket; inhibition site 323097004387 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097004388 catalytic residue [active] 323097004389 integral membrane protein MviN; Region: mviN; TIGR01695 323097004390 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 323097004391 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 323097004392 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 323097004393 CHRD domain; Region: CHRD; cl06473 323097004394 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 323097004395 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 323097004396 dimer interface [polypeptide binding]; other site 323097004397 substrate binding site [chemical binding]; other site 323097004398 ATP binding site [chemical binding]; other site 323097004399 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 323097004400 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 323097004401 putative active site [active] 323097004402 putative metal binding site [ion binding]; other site 323097004403 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 323097004404 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 323097004405 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 323097004406 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 323097004407 active site 323097004408 Permease; Region: Permease; cl00510 323097004409 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 323097004410 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 323097004411 Walker A/P-loop; other site 323097004412 ATP binding site [chemical binding]; other site 323097004413 Q-loop/lid; other site 323097004414 ABC transporter signature motif; other site 323097004415 Walker B; other site 323097004416 D-loop; other site 323097004417 H-loop/switch region; other site 323097004418 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 323097004419 mce related protein; Region: MCE; pfam02470 323097004420 Equine herpesvirus glycoprotein gp2; Region: Herpes_gp2; pfam05955 323097004421 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; cl00159 323097004422 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 323097004423 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097004424 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323097004425 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 323097004426 oxyanion hole [active] 323097004427 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 323097004428 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 323097004429 Ligand Binding Site [chemical binding]; other site 323097004430 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 323097004431 catalytic core [active] 323097004432 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097004433 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 323097004434 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 323097004435 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 323097004436 fagellar hook-basal body proteins; Region: FlgEFG_subfam; TIGR03506 323097004437 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 323097004438 flagellin; Provisional; Region: PRK14708 323097004439 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 323097004440 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 323097004441 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 323097004442 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 323097004443 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 323097004444 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 323097004445 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 323097004446 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 323097004447 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 323097004448 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323097004449 catalytic residue [active] 323097004450 Flagellar protein FlbT; Region: FlbT; cl11455 323097004451 flagellin; Reviewed; Region: PRK12688 323097004452 flagellin; Reviewed; Region: PRK12688 323097004453 flagellin; Reviewed; Region: PRK12688 323097004454 flagellin; Reviewed; Region: PRK12688 323097004455 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 323097004456 Flagellar protein FlaF; Region: FlaF; cl11454 323097004457 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 323097004458 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 323097004459 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 323097004460 Rod binding protein; Region: Rod-binding; cl01626 323097004461 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 323097004462 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 323097004463 Class II flagellar assembly regulator; Region: FliX; cl11677 323097004464 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 323097004465 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097004466 Domain of unknown function (DUF955); Region: DUF955; cl01076 323097004467 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 323097004468 PLD-like domain; Region: PLDc_2; pfam13091 323097004469 putative active site [active] 323097004470 catalytic site [active] 323097004471 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 323097004472 ATP binding site [chemical binding]; other site 323097004473 putative Mg++ binding site [ion binding]; other site 323097004474 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 323097004475 nucleotide binding region [chemical binding]; other site 323097004476 ATP-binding site [chemical binding]; other site 323097004477 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 323097004478 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 323097004479 Protein of unknown function (DUF3780); Region: DUF3780; pfam12635 323097004480 Protein of unknown function (DUF499); Region: DUF499; pfam04465 323097004481 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 323097004482 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 323097004483 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 323097004484 putative active site [active] 323097004485 putative metal binding site [ion binding]; other site 323097004486 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 323097004487 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 323097004488 Walker A motif; other site 323097004489 ATP binding site [chemical binding]; other site 323097004490 Walker B motif; other site 323097004491 arginine finger; other site 323097004492 Peptidase family M41; Region: Peptidase_M41; pfam01434 323097004493 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 323097004494 Integrase core domain; Region: rve; cl01316 323097004495 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097004496 TniQ; Region: TniQ; pfam06527 323097004497 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 323097004498 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 323097004499 Helix-turn-helix domains; Region: HTH; cl00088 323097004500 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 323097004501 ATP binding site [chemical binding]; other site 323097004502 substrate interface [chemical binding]; other site 323097004503 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 323097004504 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 323097004505 Prokaryotic E2 family E; Region: Prok-E2_E; pfam14462 323097004506 Domain of unknown function (DUF955); Region: DUF955; cl01076 323097004507 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 323097004508 ligand binding site [chemical binding]; other site 323097004509 flexible hinge region; other site 323097004510 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 323097004511 nucleophile elbow; other site 323097004512 Transposase domain (DUF772); Region: DUF772; cl15789 323097004513 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097004514 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097004515 Transposase, Mutator family; Region: Transposase_mut; pfam00872 323097004516 MULE transposase domain; Region: MULE; pfam10551 323097004517 Flagellar L-ring protein; Region: FlgH; cl00905 323097004518 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK12786 323097004519 SAF domain; Region: SAF; cl00555 323097004520 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 323097004521 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 323097004522 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 323097004523 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12689 323097004524 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 323097004525 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 323097004526 flagellar motor switch protein FliM; Reviewed; Region: fliM; PRK12795 323097004527 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 323097004528 Afadin- and alpha -actinin-Binding; Region: ADIP; pfam11559 323097004529 MgtE intracellular N domain; Region: MgtE_N; cl15244 323097004530 FliP family; Region: FliP; cl00593 323097004531 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 323097004532 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06004 323097004533 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 323097004534 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 323097004535 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 323097004536 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 323097004537 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 323097004538 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 323097004539 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 323097004540 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 323097004541 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 323097004542 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 323097004543 PAS domain; Region: PAS_9; pfam13426 323097004544 putative active site [active] 323097004545 heme pocket [chemical binding]; other site 323097004546 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 323097004547 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 323097004548 dimer interface [polypeptide binding]; other site 323097004549 phosphorylation site [posttranslational modification] 323097004550 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 323097004551 ATP binding site [chemical binding]; other site 323097004552 Mg2+ binding site [ion binding]; other site 323097004553 G-X-G motif; other site 323097004554 Response regulator receiver domain; Region: Response_reg; pfam00072 323097004555 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097004556 active site 323097004557 phosphorylation site [posttranslational modification] 323097004558 intermolecular recognition site; other site 323097004559 dimerization interface [polypeptide binding]; other site 323097004560 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; cl15419 323097004561 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 323097004562 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 323097004563 Transglycosylase; Region: Transgly; cl07896 323097004564 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 323097004565 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 323097004566 Flagellin N-methylase; Region: FliB; cl00497 323097004567 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 323097004568 putative substrate translocation pore; other site 323097004569 Flp/Fap pilin component; Region: Flp_Fap; cl01585 323097004570 Uncharacterized conserved protein [Function unknown]; Region: COG5323 323097004571 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 323097004572 GIY-YIG motif/motif A; other site 323097004573 putative active site [active] 323097004574 putative metal binding site [ion binding]; other site 323097004575 Phage-related protein [Function unknown]; Region: COG4695; cl01923 323097004576 Phage portal protein; Region: Phage_portal; pfam04860 323097004577 Domain of unknown function (DUF3559); Region: DUF3559; pfam12082 323097004578 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 323097004579 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 323097004580 Phage capsid family; Region: Phage_capsid; pfam05065 323097004581 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 323097004582 active site 323097004583 substrate binding sites [chemical binding]; other site 323097004584 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 323097004585 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 323097004586 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 323097004587 oligomerization interface [polypeptide binding]; other site 323097004588 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 323097004589 Phage major tail protein 2; Region: Phage_tail_2; cl11463 323097004590 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 323097004591 Conserved hypothetical phage protein (DUF2376); Region: DUF2376; cl09774 323097004592 Phage-related minor tail protein [Function unknown]; Region: COG5281 323097004593 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; cl02268 323097004594 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 323097004595 NlpC/P60 family; Region: NLPC_P60; cl11438 323097004596 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 323097004597 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 323097004598 Putative phage tail protein; Region: Phage-tail_3; pfam13550 323097004599 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 323097004600 D-glucuronyl C5-epimerase C-terminus; Region: C5-epim_C; pfam06662 323097004601 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 323097004602 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 323097004603 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097004604 active site 323097004605 phosphorylation site [posttranslational modification] 323097004606 intermolecular recognition site; other site 323097004607 dimerization interface [polypeptide binding]; other site 323097004608 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 323097004609 DNA binding site [nucleotide binding] 323097004610 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323097004611 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 323097004612 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 323097004613 ATP binding site [chemical binding]; other site 323097004614 Mg2+ binding site [ion binding]; other site 323097004615 G-X-G motif; other site 323097004616 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 323097004617 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 323097004618 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 323097004619 CcmE; Region: CcmE; cl00994 323097004620 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 323097004621 Cytochrome C biogenesis protein; Region: CcmH; cl01179 323097004622 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 323097004623 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 323097004624 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 323097004625 protein binding site [polypeptide binding]; other site 323097004626 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 323097004627 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 323097004628 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097004629 active site 323097004630 phosphorylation site [posttranslational modification] 323097004631 intermolecular recognition site; other site 323097004632 dimerization interface [polypeptide binding]; other site 323097004633 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 323097004634 DNA binding site [nucleotide binding] 323097004635 Cytochrome c; Region: Cytochrom_C; cl11414 323097004636 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 323097004637 putative substrate translocation pore; other site 323097004638 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 323097004639 dimerization interface [polypeptide binding]; other site 323097004640 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 323097004641 dimer interface [polypeptide binding]; other site 323097004642 phosphorylation site [posttranslational modification] 323097004643 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 323097004644 ATP binding site [chemical binding]; other site 323097004645 Mg2+ binding site [ion binding]; other site 323097004646 G-X-G motif; other site 323097004647 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 323097004648 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 323097004649 metal binding triad; other site 323097004650 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 323097004651 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 323097004652 metal binding triad; other site 323097004653 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 323097004654 putative diguanylate cyclase; Provisional; Region: PRK09776 323097004655 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 323097004656 PAS fold; Region: PAS_7; pfam12860 323097004657 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 323097004658 dimer interface [polypeptide binding]; other site 323097004659 phosphorylation site [posttranslational modification] 323097004660 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 323097004661 ATP binding site [chemical binding]; other site 323097004662 Mg2+ binding site [ion binding]; other site 323097004663 G-X-G motif; other site 323097004664 Cation efflux family; Region: Cation_efflux; cl00316 323097004665 Cation efflux family; Region: Cation_efflux; cl00316 323097004666 Cation efflux family; Region: Cation_efflux; cl00316 323097004667 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 323097004668 IHF dimer interface [polypeptide binding]; other site 323097004669 IHF - DNA interface [nucleotide binding]; other site 323097004670 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 323097004671 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 323097004672 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 323097004673 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 323097004674 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 323097004675 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 323097004676 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 323097004677 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; cl00436 323097004678 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; cl00436 323097004679 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 323097004680 CPxP motif; other site 323097004681 Domain of unknown function DUF59; Region: DUF59; cl00941 323097004682 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 323097004683 homodimer interface [polypeptide binding]; other site 323097004684 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 323097004685 active site pocket [active] 323097004686 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 323097004687 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 323097004688 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 323097004689 active site 323097004690 catalytic site [active] 323097004691 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 323097004692 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 323097004693 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 323097004694 catalytic site [active] 323097004695 active site 323097004696 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 323097004697 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 323097004698 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 323097004699 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 323097004700 glycogen branching enzyme; Provisional; Region: PRK05402 323097004701 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 323097004702 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 323097004703 active site 323097004704 catalytic site [active] 323097004705 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 323097004706 trehalose synthase; Region: treS_nterm; TIGR02456 323097004707 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 323097004708 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 323097004709 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 323097004710 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 323097004711 active site 323097004712 homodimer interface [polypeptide binding]; other site 323097004713 catalytic site [active] 323097004714 acceptor binding site [chemical binding]; other site 323097004715 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 323097004716 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 323097004717 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 323097004718 catalytic motif [active] 323097004719 Catalytic residue [active] 323097004720 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 323097004721 dimer interface [polypeptide binding]; other site 323097004722 phosphorylation site [posttranslational modification] 323097004723 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 323097004724 ATP binding site [chemical binding]; other site 323097004725 Mg2+ binding site [ion binding]; other site 323097004726 G-X-G motif; other site 323097004727 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097004728 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 323097004729 NAD(P) binding pocket [chemical binding]; other site 323097004730 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 323097004731 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323097004732 dimer interface [polypeptide binding]; other site 323097004733 putative metal binding site [ion binding]; other site 323097004734 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 323097004735 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 323097004736 Walker A motif; other site 323097004737 Transposase domain (DUF772); Region: DUF772; cl15789 323097004738 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097004739 Transposase domain (DUF772); Region: DUF772; cl15789 323097004740 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 323097004741 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 323097004742 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 323097004743 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 323097004744 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 323097004745 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 323097004746 FeS/SAM binding site; other site 323097004747 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 323097004748 phosphoglycolate phosphatase; Provisional; Region: PRK13222 323097004749 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 323097004750 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 323097004751 motif II; other site 323097004752 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 323097004753 tetramer (dimer of dimers) interface [polypeptide binding]; other site 323097004754 active site 323097004755 dimer interface [polypeptide binding]; other site 323097004756 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 323097004757 glutathione reductase; Validated; Region: PRK06116 323097004758 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323097004759 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 323097004760 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 323097004761 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 323097004762 NAD synthetase; Provisional; Region: PRK13981 323097004763 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 323097004764 multimer interface [polypeptide binding]; other site 323097004765 active site 323097004766 catalytic triad [active] 323097004767 protein interface 1 [polypeptide binding]; other site 323097004768 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 323097004769 homodimer interface [polypeptide binding]; other site 323097004770 NAD binding pocket [chemical binding]; other site 323097004771 ATP binding pocket [chemical binding]; other site 323097004772 Mg binding site [ion binding]; other site 323097004773 active-site loop [active] 323097004774 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 323097004775 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 323097004776 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 323097004777 active site 323097004778 HIGH motif; other site 323097004779 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 323097004780 KMSKS motif; other site 323097004781 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 323097004782 tRNA binding surface [nucleotide binding]; other site 323097004783 anticodon binding site; other site 323097004784 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 323097004785 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323097004786 Coenzyme A binding pocket [chemical binding]; other site 323097004787 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 323097004788 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 323097004789 active site 323097004790 catalytic residues [active] 323097004791 metal binding site [ion binding]; metal-binding site 323097004792 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 323097004793 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 323097004794 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 323097004795 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 323097004796 ATM1 is an ABC transporter that is expressed in the mitochondria. Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to...; Region: ABCC_ATM1_transporter; cd03253 323097004797 Walker A/P-loop; other site 323097004798 ATP binding site [chemical binding]; other site 323097004799 Q-loop/lid; other site 323097004800 ABC transporter signature motif; other site 323097004801 Walker B; other site 323097004802 D-loop; other site 323097004803 H-loop/switch region; other site 323097004804 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 323097004805 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 323097004806 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 323097004807 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 323097004808 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 323097004809 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 323097004810 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 323097004811 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 323097004812 ligand binding site [chemical binding]; other site 323097004813 K+ potassium transporter; Region: K_trans; cl15781 323097004814 Transposase domain (DUF772); Region: DUF772; cl15789 323097004815 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097004816 Transposase domain (DUF772); Region: DUF772; cl15789 323097004817 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 323097004818 active site residue [active] 323097004819 hypothetical protein; Provisional; Region: PRK08912 323097004820 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 323097004821 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097004822 homodimer interface [polypeptide binding]; other site 323097004823 catalytic residue [active] 323097004824 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 323097004825 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 323097004826 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 323097004827 putative acyl-acceptor binding pocket; other site 323097004828 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 323097004829 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 323097004830 dimer interface [polypeptide binding]; other site 323097004831 active site 323097004832 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 323097004833 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 323097004834 active site 323097004835 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 323097004836 Phosphopantetheine attachment site; Region: PP-binding; cl09936 323097004837 Domain of unknown function DUF87; Region: DUF87; pfam01935 323097004838 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 323097004839 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 323097004840 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097004841 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097004842 transcriptional regulator SlyA; Provisional; Region: PRK03573 323097004843 Helix-turn-helix domains; Region: HTH; cl00088 323097004844 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 323097004845 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 323097004846 N-terminal plug; other site 323097004847 ligand-binding site [chemical binding]; other site 323097004848 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 323097004849 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 323097004850 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 323097004851 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 323097004852 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 323097004853 Gram-negative bacterial tonB protein; Region: TonB; cl10048 323097004854 Oligosaccharyltransferase subunit Ribophorin II; Region: Ribophorin_II; pfam05817 323097004855 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 323097004856 active site 323097004857 putative substrate binding region [chemical binding]; other site 323097004858 JmjC domain, hydroxylase; Region: JmjC; cl15814 323097004859 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 323097004860 PilZ domain; Region: PilZ; cl01260 323097004861 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 323097004862 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 323097004863 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 323097004864 putative homodimer interface [polypeptide binding]; other site 323097004865 KOW motif; Region: KOW; cl00354 323097004866 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 323097004867 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 323097004868 23S rRNA interface [nucleotide binding]; other site 323097004869 L7/L12 interface [polypeptide binding]; other site 323097004870 putative thiostrepton binding site; other site 323097004871 L25 interface [polypeptide binding]; other site 323097004872 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 323097004873 mRNA/rRNA interface [nucleotide binding]; other site 323097004874 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 323097004875 23S rRNA interface [nucleotide binding]; other site 323097004876 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 323097004877 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 323097004878 L11 interface [polypeptide binding]; other site 323097004879 putative EF-Tu interaction site [polypeptide binding]; other site 323097004880 putative EF-G interaction site [polypeptide binding]; other site 323097004881 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; cl04593 323097004882 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 323097004883 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 323097004884 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 323097004885 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; cl04593 323097004886 RPB11 interaction site [polypeptide binding]; other site 323097004887 RPB12 interaction site [polypeptide binding]; other site 323097004888 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 323097004889 RPB3 interaction site [polypeptide binding]; other site 323097004890 RPB1 interaction site [polypeptide binding]; other site 323097004891 RPB11 interaction site [polypeptide binding]; other site 323097004892 RPB10 interaction site [polypeptide binding]; other site 323097004893 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 323097004894 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 323097004895 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 323097004896 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 323097004897 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 323097004898 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 323097004899 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 323097004900 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 323097004901 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 323097004902 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 323097004903 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 323097004904 DNA binding site [nucleotide binding] 323097004905 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 323097004906 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097004907 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 323097004908 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097004909 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 323097004910 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 323097004911 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097004912 Walker A/P-loop; other site 323097004913 ATP binding site [chemical binding]; other site 323097004914 Q-loop/lid; other site 323097004915 ABC transporter signature motif; other site 323097004916 Walker B; other site 323097004917 D-loop; other site 323097004918 H-loop/switch region; other site 323097004919 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097004920 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 323097004921 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 323097004922 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 323097004923 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 323097004924 Helix-turn-helix domains; Region: HTH; cl00088 323097004925 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 323097004926 S17 interaction site [polypeptide binding]; other site 323097004927 S8 interaction site; other site 323097004928 16S rRNA interaction site [nucleotide binding]; other site 323097004929 streptomycin interaction site [chemical binding]; other site 323097004930 23S rRNA interaction site [nucleotide binding]; other site 323097004931 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 323097004932 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 323097004933 elongation factor G; Reviewed; Region: PRK00007 323097004934 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 323097004935 G1 box; other site 323097004936 putative GEF interaction site [polypeptide binding]; other site 323097004937 GTP/Mg2+ binding site [chemical binding]; other site 323097004938 Switch I region; other site 323097004939 G2 box; other site 323097004940 G3 box; other site 323097004941 Switch II region; other site 323097004942 G4 box; other site 323097004943 G5 box; other site 323097004944 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 323097004945 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 323097004946 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 323097004947 elongation factor Tu; Reviewed; Region: PRK00049 323097004948 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 323097004949 G1 box; other site 323097004950 GEF interaction site [polypeptide binding]; other site 323097004951 GTP/Mg2+ binding site [chemical binding]; other site 323097004952 Switch I region; other site 323097004953 G2 box; other site 323097004954 G3 box; other site 323097004955 Switch II region; other site 323097004956 G4 box; other site 323097004957 G5 box; other site 323097004958 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 323097004959 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 323097004960 Antibiotic Binding Site [chemical binding]; other site 323097004961 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 323097004962 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 323097004963 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 323097004964 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 323097004965 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 323097004966 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 323097004967 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 323097004968 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 323097004969 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 323097004970 putative translocon binding site; other site 323097004971 protein-rRNA interface [nucleotide binding]; other site 323097004972 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 323097004973 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 323097004974 G-X-X-G motif; other site 323097004975 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 323097004976 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 323097004977 23S rRNA interface [nucleotide binding]; other site 323097004978 5S rRNA interface [nucleotide binding]; other site 323097004979 putative antibiotic binding site [chemical binding]; other site 323097004980 L25 interface [polypeptide binding]; other site 323097004981 L27 interface [polypeptide binding]; other site 323097004982 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 323097004983 23S rRNA interface [nucleotide binding]; other site 323097004984 putative translocon interaction site; other site 323097004985 signal recognition particle (SRP54) interaction site; other site 323097004986 L23 interface [polypeptide binding]; other site 323097004987 trigger factor interaction site; other site 323097004988 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 323097004989 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 323097004990 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 323097004991 KOW motif; Region: KOW; cl00354 323097004992 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 323097004993 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 323097004994 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 323097004995 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 323097004996 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 323097004997 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 323097004998 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 323097004999 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 323097005000 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 323097005001 5S rRNA interface [nucleotide binding]; other site 323097005002 23S rRNA interface [nucleotide binding]; other site 323097005003 L5 interface [polypeptide binding]; other site 323097005004 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 323097005005 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 323097005006 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 323097005007 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 323097005008 23S rRNA binding site [nucleotide binding]; other site 323097005009 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 323097005010 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 323097005011 SecY translocase; Region: SecY; pfam00344 323097005012 adenylate kinase; Reviewed; Region: adk; PRK00279 323097005013 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 323097005014 AMP-binding site [chemical binding]; other site 323097005015 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 323097005016 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 323097005017 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 323097005018 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 323097005019 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 323097005020 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 323097005021 alphaNTD - beta interaction site [polypeptide binding]; other site 323097005022 alphaNTD homodimer interface [polypeptide binding]; other site 323097005023 alphaNTD - beta' interaction site [polypeptide binding]; other site 323097005024 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 323097005025 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 323097005026 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 323097005027 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 323097005028 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 323097005029 protein binding site [polypeptide binding]; other site 323097005030 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 323097005031 protein binding site [polypeptide binding]; other site 323097005032 recombination factor protein RarA; Reviewed; Region: PRK13342 323097005033 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 323097005034 Walker A motif; other site 323097005035 ATP binding site [chemical binding]; other site 323097005036 Walker B motif; other site 323097005037 arginine finger; other site 323097005038 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 323097005039 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 323097005040 binding surface 323097005041 TPR motif; other site 323097005042 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 323097005043 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; cl09940 323097005044 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 323097005045 active site 323097005046 ATP12 chaperone protein; Region: ATP12; cl02228 323097005047 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 323097005048 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 323097005049 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 323097005050 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 323097005051 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 323097005052 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 323097005053 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 323097005054 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097005055 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323097005056 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 323097005057 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; cl12045 323097005058 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 323097005059 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 323097005060 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 323097005061 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 323097005062 dimer interface [polypeptide binding]; other site 323097005063 active site 323097005064 CoA binding pocket [chemical binding]; other site 323097005065 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 323097005066 IHF dimer interface [polypeptide binding]; other site 323097005067 IHF - DNA interface [nucleotide binding]; other site 323097005068 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 323097005069 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 323097005070 DNA binding residues [nucleotide binding] 323097005071 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 323097005072 Staphylococcal nuclease homologues; Region: SNc; smart00318 323097005073 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 323097005074 Catalytic site; other site 323097005075 Transposase domain (DUF772); Region: DUF772; cl15789 323097005076 Transposase domain (DUF772); Region: DUF772; cl15789 323097005077 Repair protein; Region: Repair_PSII; cl01535 323097005078 Transposase domain (DUF772); Region: DUF772; cl15789 323097005079 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 323097005080 Mu-like prophage I protein [General function prediction only]; Region: COG4388 323097005081 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 323097005082 Mor transcription activator family; Region: Mor; cl02360 323097005083 AAA domain; Region: AAA_22; pfam13401 323097005084 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097005085 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 323097005086 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 323097005087 recombinase A; Provisional; Region: recA; PRK09354 323097005088 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 323097005089 hexamer interface [polypeptide binding]; other site 323097005090 Walker A motif; other site 323097005091 ATP binding site [chemical binding]; other site 323097005092 Walker B motif; other site 323097005093 glycine dehydrogenase; Provisional; Region: PRK05367 323097005094 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 323097005095 tetramer interface [polypeptide binding]; other site 323097005096 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097005097 catalytic residue [active] 323097005098 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 323097005099 tetramer interface [polypeptide binding]; other site 323097005100 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097005101 catalytic residue [active] 323097005102 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 323097005103 lipoyl attachment site [posttranslational modification]; other site 323097005104 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 323097005105 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 323097005106 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 323097005107 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 formation of...; Region: AlaRS_core; cd00673 323097005108 motif 1; other site 323097005109 active site 323097005110 motif 2; other site 323097005111 motif 3; other site 323097005112 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 323097005113 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_19; cd07262 323097005114 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323097005115 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 323097005116 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 323097005117 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 323097005118 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 323097005119 putative active site [active] 323097005120 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 323097005121 Helix-turn-helix domains; Region: HTH; cl00088 323097005122 Winged helix-turn helix; Region: HTH_29; pfam13551 323097005123 Helix-turn-helix domains; Region: HTH; cl00088 323097005124 Integrase core domain; Region: rve; cl01316 323097005125 Helix-turn-helix domains; Region: HTH; cl00088 323097005126 Winged helix-turn helix; Region: HTH_29; pfam13551 323097005127 Helix-turn-helix domains; Region: HTH; cl00088 323097005128 Integrase core domain; Region: rve; cl01316 323097005129 cyanate hydratase; Validated; Region: PRK02866 323097005130 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 323097005131 oligomer interface [polypeptide binding]; other site 323097005132 active site 323097005133 Domain of unknown function (DUF1476); Region: DUF1476; cl11571 323097005134 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 323097005135 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 323097005136 ATP binding site [chemical binding]; other site 323097005137 active site 323097005138 substrate binding site [chemical binding]; other site 323097005139 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 323097005140 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 323097005141 putative active site [active] 323097005142 catalytic triad [active] 323097005143 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 323097005144 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 323097005145 dimerization interface [polypeptide binding]; other site 323097005146 ATP binding site [chemical binding]; other site 323097005147 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 323097005148 dimerization interface [polypeptide binding]; other site 323097005149 ATP binding site [chemical binding]; other site 323097005150 BolA-like protein; Region: BolA; cl00386 323097005151 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 323097005152 probable methyltransferase; Region: TIGR03438 323097005153 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 323097005154 TIGR03440 family protein; Region: unchr_TIGR03440 323097005155 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 323097005156 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 323097005157 putative GSH binding site [chemical binding]; other site 323097005158 catalytic residues [active] 323097005159 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 323097005160 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 323097005161 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 323097005162 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 323097005163 RNA binding surface [nucleotide binding]; other site 323097005164 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 323097005165 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 323097005166 PAS domain; Region: PAS_5; pfam07310 323097005167 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 323097005168 FOG: CBS domain [General function prediction only]; Region: COG0517 323097005169 hypothetical protein; Provisional; Region: PRK10279 323097005170 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 323097005171 nucleophile elbow; other site 323097005172 Transposase domain (DUF772); Region: DUF772; cl15789 323097005173 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097005174 Transposase domain (DUF772); Region: DUF772; cl15789 323097005175 Haemolytic domain; Region: Haemolytic; cl00506 323097005176 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 323097005177 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 323097005178 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 323097005179 trimerization site [polypeptide binding]; other site 323097005180 active site 323097005181 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 323097005182 GTP cyclohydrolase I; Provisional; Region: PLN03044 323097005183 active site 323097005184 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 323097005185 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 catalyze...; Region: LT_GEWL; cd00254 323097005186 N-acetyl-D-glucosamine binding site [chemical binding]; other site 323097005187 catalytic residue [active] 323097005188 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; cl15419 323097005189 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 323097005190 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097005191 Response regulator receiver domain; Region: Response_reg; pfam00072 323097005192 active site 323097005193 phosphorylation site [posttranslational modification] 323097005194 intermolecular recognition site; other site 323097005195 dimerization interface [polypeptide binding]; other site 323097005196 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 323097005197 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 323097005198 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 323097005199 putative FMN binding site [chemical binding]; other site 323097005200 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 323097005201 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 323097005202 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 323097005203 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 323097005204 active site 323097005205 dimer interface [polypeptide binding]; other site 323097005206 motif 1; other site 323097005207 motif 2; other site 323097005208 motif 3; other site 323097005209 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 323097005210 anticodon binding site; other site 323097005211 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 323097005212 ArsC family; Region: ArsC; pfam03960 323097005213 putative catalytic residues [active] 323097005214 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 323097005215 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 323097005216 Walker A/P-loop; other site 323097005217 ATP binding site [chemical binding]; other site 323097005218 Q-loop/lid; other site 323097005219 ABC transporter signature motif; other site 323097005220 Walker B; other site 323097005221 D-loop; other site 323097005222 H-loop/switch region; other site 323097005223 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 323097005224 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 323097005225 Walker A/P-loop; other site 323097005226 ATP binding site [chemical binding]; other site 323097005227 Q-loop/lid; other site 323097005228 ABC transporter signature motif; other site 323097005229 Walker B; other site 323097005230 D-loop; other site 323097005231 H-loop/switch region; other site 323097005232 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 323097005233 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 323097005234 putative ligand binding site [chemical binding]; other site 323097005235 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 323097005236 TM-ABC transporter signature motif; other site 323097005237 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 323097005238 TM-ABC transporter signature motif; other site 323097005239 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 323097005240 Phosphate transporter family; Region: PHO4; cl00396 323097005241 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 323097005242 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 323097005243 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 323097005244 G1 box; other site 323097005245 putative GEF interaction site [polypeptide binding]; other site 323097005246 GTP/Mg2+ binding site [chemical binding]; other site 323097005247 Switch I region; other site 323097005248 G2 box; other site 323097005249 G3 box; other site 323097005250 Switch II region; other site 323097005251 G4 box; other site 323097005252 G5 box; other site 323097005253 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 323097005254 Phospholipid methyltransferase; Region: PEMT; cl00763 323097005255 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 323097005256 oligomerization interface [polypeptide binding]; other site 323097005257 active site 323097005258 metal binding site [ion binding]; metal-binding site 323097005259 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 323097005260 GTP-binding protein Der; Reviewed; Region: PRK00093 323097005261 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 323097005262 G1 box; other site 323097005263 GTP/Mg2+ binding site [chemical binding]; other site 323097005264 Switch I region; other site 323097005265 G2 box; other site 323097005266 Switch II region; other site 323097005267 G3 box; other site 323097005268 G4 box; other site 323097005269 G5 box; other site 323097005270 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 323097005271 G1 box; other site 323097005272 GTP/Mg2+ binding site [chemical binding]; other site 323097005273 Switch I region; other site 323097005274 G2 box; other site 323097005275 G3 box; other site 323097005276 Switch II region; other site 323097005277 G4 box; other site 323097005278 G5 box; other site 323097005279 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 323097005280 classical (c) SDRs; Region: SDR_c; cd05233 323097005281 NAD(P) binding site [chemical binding]; other site 323097005282 active site 323097005283 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 contains two...; Region: OMP_decarboxylase_like; cd04725 323097005284 active site 323097005285 dimer interface [polypeptide binding]; other site 323097005286 Transposase domain (DUF772); Region: DUF772; cl15789 323097005287 Transposase domain (DUF772); Region: DUF772; cl15789 323097005288 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 323097005289 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 323097005290 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 323097005291 generic binding surface I; other site 323097005292 generic binding surface II; other site 323097005293 30S ribosomal protein S2/unknown domain fusion protein; Provisional; Region: rpsB; PRK12311 323097005294 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 323097005295 rRNA interaction site [nucleotide binding]; other site 323097005296 S8 interaction site; other site 323097005297 putative laminin-1 binding site; other site 323097005298 Uncharacterized conserved protein [Function unknown]; Region: COG3743 323097005299 elongation factor Ts; Provisional; Region: tsf; PRK09377 323097005300 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 323097005301 Elongation factor TS; Region: EF_TS; pfam00889 323097005302 Elongation factor TS; Region: EF_TS; pfam00889 323097005303 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 323097005304 putative nucleotide binding site [chemical binding]; other site 323097005305 uridine monophosphate binding site [chemical binding]; other site 323097005306 homohexameric interface [polypeptide binding]; other site 323097005307 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 round of...; Region: RRF; cd00520 323097005308 hinge region; other site 323097005309 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 323097005310 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 323097005311 catalytic residue [active] 323097005312 putative FPP diphosphate binding site; other site 323097005313 putative FPP binding hydrophobic cleft; other site 323097005314 dimer interface [polypeptide binding]; other site 323097005315 putative IPP diphosphate binding site; other site 323097005316 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 323097005317 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 323097005318 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 323097005319 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 323097005320 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 323097005321 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 323097005322 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 323097005323 active site 323097005324 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 323097005325 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 323097005326 putative substrate binding region [chemical binding]; other site 323097005327 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 323097005328 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 323097005329 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 323097005330 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 323097005331 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 323097005332 Surface antigen; Region: Bac_surface_Ag; cl03097 323097005333 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 323097005334 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 323097005335 putative trimer interface [polypeptide binding]; other site 323097005336 putative CoA binding site [chemical binding]; other site 323097005337 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 323097005338 trimer interface [polypeptide binding]; other site 323097005339 active site 323097005340 UDP-GlcNAc binding site [chemical binding]; other site 323097005341 lipid binding site [chemical binding]; lipid-binding site 323097005342 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 323097005343 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 323097005344 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 323097005345 active site 323097005346 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 323097005347 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 323097005348 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 323097005349 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 323097005350 dimer interface [polypeptide binding]; other site 323097005351 Citrate synthase; Region: Citrate_synt; pfam00285 323097005352 active site 323097005353 citrylCoA binding site [chemical binding]; other site 323097005354 NADH binding [chemical binding]; other site 323097005355 cationic pore residues; other site 323097005356 oxalacetate/citrate binding site [chemical binding]; other site 323097005357 coenzyme A binding site [chemical binding]; other site 323097005358 catalytic triad [active] 323097005359 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 323097005360 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 323097005361 HIGH motif; other site 323097005362 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 323097005363 active site 323097005364 KMSKS motif; other site 323097005365 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 323097005366 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 323097005367 active site 323097005368 HIGH motif; other site 323097005369 nucleotide binding site [chemical binding]; other site 323097005370 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 323097005371 KMSKS motif; other site 323097005372 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 323097005373 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 323097005374 Competence protein; Region: Competence; cl00471 323097005375 Phage-related protein [Function unknown]; Region: COG4695; cl01923 323097005376 Phage portal protein; Region: Phage_portal; pfam04860 323097005377 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 323097005378 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 323097005379 Phage capsid family; Region: Phage_capsid; pfam05065 323097005380 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 323097005381 oligomerization interface [polypeptide binding]; other site 323097005382 Phage terminase, small subunit; Region: Terminase_4; cl01525 323097005383 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 323097005384 Phage Terminase; Region: Terminase_1; pfam03354 323097005385 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 323097005386 DNA binding site [nucleotide binding] 323097005387 Int/Topo IB signature motif; other site 323097005388 active site 323097005389 LexA repressor; Validated; Region: PRK00215 323097005390 Helix-turn-helix domains; Region: HTH; cl00088 323097005391 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 323097005392 Catalytic site [active] 323097005393 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 323097005394 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 323097005395 dimer interface [polypeptide binding]; other site 323097005396 putative functional site; other site 323097005397 putative MPT binding site; other site 323097005398 SPW repeat; Region: SPW; pfam03779 323097005399 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 323097005400 trimer interface [polypeptide binding]; other site 323097005401 dimer interface [polypeptide binding]; other site 323097005402 putative active site [active] 323097005403 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 323097005404 active site 323097005405 ribulose/triose binding site [chemical binding]; other site 323097005406 phosphate binding site [ion binding]; other site 323097005407 substrate (anthranilate) binding pocket [chemical binding]; other site 323097005408 product (indole) binding pocket [chemical binding]; other site 323097005409 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 323097005410 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 323097005411 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 323097005412 SurA N-terminal domain; Region: SurA_N_3; cl07813 323097005413 PPIC-type PPIASE domain; Region: Rotamase; cl08278 323097005414 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 323097005415 substrate binding site [chemical binding]; other site 323097005416 dimer interface [polypeptide binding]; other site 323097005417 catalytic triad [active] 323097005418 CTP synthetase; Validated; Region: pyrG; PRK05380 323097005419 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 323097005420 Catalytic site [active] 323097005421 active site 323097005422 UTP binding site [chemical binding]; other site 323097005423 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 323097005424 active site 323097005425 putative oxyanion hole; other site 323097005426 catalytic triad [active] 323097005427 NeuB family; Region: NeuB; cl00496 323097005428 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 323097005429 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 323097005430 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 323097005431 putative substrate translocation pore; other site 323097005432 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 323097005433 enolase; Provisional; Region: eno; PRK00077 323097005434 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 323097005435 dimer interface [polypeptide binding]; other site 323097005436 metal binding site [ion binding]; metal-binding site 323097005437 substrate binding pocket [chemical binding]; other site 323097005438 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 323097005439 Phospholipid methyltransferase; Region: PEMT; cl00763 323097005440 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 323097005441 Septum formation initiator; Region: DivIC; cl11433 323097005442 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 323097005443 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 323097005444 tetramer interface [polypeptide binding]; other site 323097005445 TPP-binding site [chemical binding]; other site 323097005446 heterodimer interface [polypeptide binding]; other site 323097005447 phosphorylation loop region [posttranslational modification] 323097005448 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 323097005449 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 323097005450 E3 interaction surface; other site 323097005451 lipoyl attachment site [posttranslational modification]; other site 323097005452 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 323097005453 alpha subunit interface [polypeptide binding]; other site 323097005454 TPP binding site [chemical binding]; other site 323097005455 heterodimer interface [polypeptide binding]; other site 323097005456 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 323097005457 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 323097005458 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 323097005459 E3 interaction surface; other site 323097005460 lipoyl attachment site [posttranslational modification]; other site 323097005461 e3 binding domain; Region: E3_binding; pfam02817 323097005462 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 323097005463 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 323097005464 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097005465 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323097005466 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 323097005467 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 323097005468 Sel1 repeat; Region: Sel1; cl02723 323097005469 Sel1 repeat; Region: Sel1; cl02723 323097005470 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 323097005471 putative phosphate binding site [ion binding]; other site 323097005472 putative catalytic site [active] 323097005473 active site 323097005474 metal binding site A [ion binding]; metal-binding site 323097005475 DNA binding site [nucleotide binding] 323097005476 putative AP binding site [nucleotide binding]; other site 323097005477 putative metal binding site B [ion binding]; other site 323097005478 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 323097005479 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 323097005480 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 323097005481 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 323097005482 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 323097005483 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 323097005484 active site 323097005485 HIGH motif; other site 323097005486 KMSK motif region; other site 323097005487 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 323097005488 tRNA binding surface [nucleotide binding]; other site 323097005489 anticodon binding site; other site 323097005490 cell division protein ZipA; Provisional; Region: PRK03427 323097005491 Sporulation related domain; Region: SPOR; cl10051 323097005492 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 323097005493 ScpA/B protein; Region: ScpA_ScpB; cl00598 323097005494 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 323097005495 MarC family integral membrane protein; Region: MarC; cl00919 323097005496 DNA gyrase subunit A; Validated; Region: PRK05560 323097005497 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 in DNA...; Region: TOP4c; cd00187 323097005498 CAP-like domain; other site 323097005499 active site 323097005500 primary dimer interface [polypeptide binding]; other site 323097005501 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 323097005502 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 323097005503 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 323097005504 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 323097005505 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 323097005506 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 323097005507 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 323097005508 active site 323097005509 (T/H)XGH motif; other site 323097005510 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 323097005511 active site 323097005512 Gram-negative bacterial tonB protein; Region: TonB; cl10048 323097005513 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 323097005514 active site 323097005515 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 323097005516 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 323097005517 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 323097005518 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 323097005519 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 323097005520 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 323097005521 dimer interface [polypeptide binding]; other site 323097005522 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097005523 catalytic residue [active] 323097005524 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 323097005525 Glycosyl hydrolases family 17; Region: Glyco_hydro_17; cl02191 323097005526 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 323097005527 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 323097005528 active site 323097005529 Glycosyl hydrolases family 17; Region: Glyco_hydro_17; cl02191 323097005530 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 323097005531 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 323097005532 Substrate binding site; other site 323097005533 Mg++ binding site; other site 323097005534 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 323097005535 active site 323097005536 substrate binding site [chemical binding]; other site 323097005537 CoA binding site [chemical binding]; other site 323097005538 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 323097005539 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097005540 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 323097005541 twin arginine translocase protein A; Validated; Region: tatE; PRK01614 323097005542 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 323097005543 sec-independent translocase; Provisional; Region: tatB; PRK00404 323097005544 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 323097005545 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 323097005546 seryl-tRNA synthetase; Provisional; Region: PRK05431 323097005547 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 323097005548 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 bound...; Region: SerRS_core; cd00770 323097005549 dimer interface [polypeptide binding]; other site 323097005550 active site 323097005551 motif 1; other site 323097005552 motif 2; other site 323097005553 motif 3; other site 323097005554 Survival protein SurE; Region: SurE; cl00448 323097005555 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 323097005556 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097005557 active site 323097005558 phosphorylation site [posttranslational modification] 323097005559 intermolecular recognition site; other site 323097005560 dimerization interface [polypeptide binding]; other site 323097005561 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 323097005562 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 323097005563 S-adenosylmethionine binding site [chemical binding]; other site 323097005564 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 323097005565 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 323097005566 putative peptidoglycan binding site; other site 323097005567 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 323097005568 putative peptidoglycan binding site; other site 323097005569 Peptidase family M23; Region: Peptidase_M23; pfam01551 323097005570 Chromate transporter; Region: Chromate_transp; pfam02417 323097005571 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 323097005572 Chromate transporter; Region: Chromate_transp; pfam02417 323097005573 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097005574 Preprotein translocase subunit; Region: YajC; cl00806 323097005575 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 323097005576 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 323097005577 Protein export membrane protein; Region: SecD_SecF; cl14618 323097005578 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 323097005579 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 323097005580 Protein export membrane protein; Region: SecD_SecF; cl14618 323097005581 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 323097005582 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 323097005583 substrate binding pocket [chemical binding]; other site 323097005584 aspartate-rich region 2; other site 323097005585 substrate-Mg2+ binding site; other site 323097005586 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 323097005587 active site 323097005588 ATP binding site [chemical binding]; other site 323097005589 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 323097005590 AMP-binding enzyme; Region: AMP-binding; cl15778 323097005591 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 323097005592 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097005593 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 323097005594 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 323097005595 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 323097005596 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 323097005597 NADH ubiquinone oxidoreductase subunit NDUFA12; Region: NDUFA12; cl01534 323097005598 FecR protein; Region: FecR; pfam04773 323097005599 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; cl01970 323097005600 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 323097005601 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 323097005602 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 323097005603 dimer interface [polypeptide binding]; other site 323097005604 glycine-pyridoxal phosphate binding site [chemical binding]; other site 323097005605 active site 323097005606 folate binding site [chemical binding]; other site 323097005607 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 323097005608 ATP cone domain; Region: ATP-cone; pfam03477 323097005609 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 323097005610 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 323097005611 catalytic motif [active] 323097005612 Zn binding site [ion binding]; other site 323097005613 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 323097005614 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 323097005615 Lumazine binding domain; Region: Lum_binding; pfam00677 323097005616 Lumazine binding domain; Region: Lum_binding; pfam00677 323097005617 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 323097005618 homopentamer interface [polypeptide binding]; other site 323097005619 active site 323097005620 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 323097005621 putative RNA binding site [nucleotide binding]; other site 323097005622 thiamine-monophosphate kinase; Region: thiL; TIGR01379 323097005623 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 323097005624 ATP binding site [chemical binding]; other site 323097005625 dimerization interface [polypeptide binding]; other site 323097005626 Transposase domain (DUF772); Region: DUF772; cl15789 323097005627 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097005628 Transposase domain (DUF772); Region: DUF772; cl15789 323097005629 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 323097005630 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 323097005631 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 323097005632 AMIN domain; Region: AMIN; pfam11741 323097005633 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 323097005634 active site 323097005635 metal binding site [ion binding]; metal-binding site 323097005636 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 323097005637 Transglycosylase; Region: Transgly; cl07896 323097005638 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 323097005639 peptide chain release factor 2; Provisional; Region: PRK07342 323097005640 RF-1 domain; Region: RF-1; cl02875 323097005641 RF-1 domain; Region: RF-1; cl02875 323097005642 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 323097005643 Protein of unknown function (DUF2497); Region: DUF2497; cl11534 323097005644 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 323097005645 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 323097005646 HIGH motif; other site 323097005647 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 323097005648 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 323097005649 active site 323097005650 KMSKS motif; other site 323097005651 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 323097005652 tRNA binding surface [nucleotide binding]; other site 323097005653 anticodon binding site; other site 323097005654 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 323097005655 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 323097005656 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 323097005657 DNA binding site [nucleotide binding] 323097005658 active site 323097005659 lipoyl synthase; Provisional; Region: PRK05481 323097005660 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 323097005661 FeS/SAM binding site; other site 323097005662 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 323097005663 putative coenzyme Q binding site [chemical binding]; other site 323097005664 Competence-damaged protein; Region: CinA; cl00666 323097005665 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 323097005666 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 323097005667 substrate binding site; other site 323097005668 dimer interface; other site 323097005669 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 323097005670 homotrimer interaction site [polypeptide binding]; other site 323097005671 zinc binding site [ion binding]; other site 323097005672 CDP-binding sites; other site 323097005673 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 323097005674 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 323097005675 FMN binding site [chemical binding]; other site 323097005676 active site 323097005677 catalytic residues [active] 323097005678 substrate binding site [chemical binding]; other site 323097005679 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 323097005680 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 323097005681 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 323097005682 dimer interface [polypeptide binding]; other site 323097005683 phosphorylation site [posttranslational modification] 323097005684 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 323097005685 ATP binding site [chemical binding]; other site 323097005686 Mg2+ binding site [ion binding]; other site 323097005687 G-X-G motif; other site 323097005688 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 323097005689 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097005690 active site 323097005691 phosphorylation site [posttranslational modification] 323097005692 intermolecular recognition site; other site 323097005693 dimerization interface [polypeptide binding]; other site 323097005694 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 323097005695 Walker A motif; other site 323097005696 ATP binding site [chemical binding]; other site 323097005697 Walker B motif; other site 323097005698 Helix-turn-helix domains; Region: HTH; cl00088 323097005699 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 323097005700 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 323097005701 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 323097005702 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 323097005703 dimer interface [polypeptide binding]; other site 323097005704 phosphorylation site [posttranslational modification] 323097005705 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 323097005706 ATP binding site [chemical binding]; other site 323097005707 Mg2+ binding site [ion binding]; other site 323097005708 G-X-G motif; other site 323097005709 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 323097005710 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097005711 active site 323097005712 phosphorylation site [posttranslational modification] 323097005713 intermolecular recognition site; other site 323097005714 dimerization interface [polypeptide binding]; other site 323097005715 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 323097005716 Walker A motif; other site 323097005717 ATP binding site [chemical binding]; other site 323097005718 Walker B motif; other site 323097005719 arginine finger; other site 323097005720 Helix-turn-helix domains; Region: HTH; cl00088 323097005721 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 323097005722 homodimer interface [polypeptide binding]; other site 323097005723 substrate-cofactor binding pocket; other site 323097005724 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097005725 catalytic residue [active] 323097005726 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 323097005727 Sm1 motif; other site 323097005728 intra - hexamer interaction site; other site 323097005729 inter - hexamer interaction site [polypeptide binding]; other site 323097005730 nucleotide binding pocket [chemical binding]; other site 323097005731 Sm2 motif; other site 323097005732 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 323097005733 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 323097005734 HflX GTPase family; Region: HflX; cd01878 323097005735 G1 box; other site 323097005736 GTP/Mg2+ binding site [chemical binding]; other site 323097005737 Switch I region; other site 323097005738 G2 box; other site 323097005739 G3 box; other site 323097005740 Switch II region; other site 323097005741 G4 box; other site 323097005742 G5 box; other site 323097005743 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 323097005744 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 323097005745 tetramerization interface [polypeptide binding]; other site 323097005746 NAD(P) binding site [chemical binding]; other site 323097005747 catalytic residues [active] 323097005748 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 323097005749 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 323097005750 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 323097005751 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 323097005752 Ligand Binding Site [chemical binding]; other site 323097005753 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 323097005754 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323097005755 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097005756 lipoyl-biotinyl attachment site [posttranslational modification]; other site 323097005757 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097005758 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 323097005759 FixH; Region: FixH; cl01254 323097005760 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 323097005761 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097005762 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 323097005763 Helix-turn-helix domains; Region: HTH; cl00088 323097005764 TniQ; Region: TniQ; pfam06527 323097005765 AAA domain; Region: AAA_22; pfam13401 323097005766 Integrase core domain; Region: rve; cl01316 323097005767 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 323097005768 Int/Topo IB signature motif; other site 323097005769 active site 323097005770 DNA binding site [nucleotide binding] 323097005771 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 323097005772 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 323097005773 Major Facilitator Superfamily; Region: MFS_1; pfam07690 323097005774 putative substrate translocation pore; other site 323097005775 Uncharacterized conserved protein [Function unknown]; Region: COG3391 323097005776 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 323097005777 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 323097005778 methionine gamma-lyase; Validated; Region: PRK07049 323097005779 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 323097005780 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323097005781 Restriction endonuclease; Region: Mrr_cat; cl00516 323097005782 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 323097005783 Sulfate transporter family; Region: Sulfate_transp; cl15842 323097005784 Sulfate transporter family; Region: Sulfate_transp; cl15842 323097005785 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 323097005786 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 323097005787 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 323097005788 protein binding site [polypeptide binding]; other site 323097005789 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 323097005790 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 323097005791 protein binding site [polypeptide binding]; other site 323097005792 Helix-turn-helix domains; Region: HTH; cl00088 323097005793 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 323097005794 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 323097005795 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 323097005796 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 323097005797 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097005798 active site 323097005799 phosphorylation site [posttranslational modification] 323097005800 intermolecular recognition site; other site 323097005801 dimerization interface [polypeptide binding]; other site 323097005802 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 323097005803 DNA binding site [nucleotide binding] 323097005804 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323097005805 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 323097005806 ATP binding site [chemical binding]; other site 323097005807 Mg2+ binding site [ion binding]; other site 323097005808 G-X-G motif; other site 323097005809 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 323097005810 putative homotetramer interface [polypeptide binding]; other site 323097005811 putative homodimer interface [polypeptide binding]; other site 323097005812 putative metal binding site [ion binding]; other site 323097005813 putative homodimer-homodimer interface [polypeptide binding]; other site 323097005814 putative allosteric switch controlling residues; other site 323097005815 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 323097005816 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097005817 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 323097005818 Cupin domain; Region: Cupin_2; cl09118 323097005819 Acetokinase family; Region: Acetate_kinase; cl01029 323097005820 propionate/acetate kinase; Provisional; Region: PRK12379 323097005821 putative phosphoketolase; Provisional; Region: PRK05261 323097005822 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 323097005823 TPP-binding site; other site 323097005824 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 323097005825 XFP C-terminal domain; Region: XFP_C; pfam09363 323097005826 FOG: CBS domain [General function prediction only]; Region: COG0517 323097005827 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 323097005828 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 323097005829 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 323097005830 Beta-Casp domain; Region: Beta-Casp; cl12567 323097005831 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 323097005832 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 323097005833 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 323097005834 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323097005835 active site 323097005836 thymidine phosphorylase; Provisional; Region: PRK04350 323097005837 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 323097005838 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 323097005839 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 323097005840 MgtC family; Region: MgtC; pfam02308 323097005841 Predicted membrane protein [Function unknown]; Region: COG3174 323097005842 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 323097005843 FOG: CBS domain [General function prediction only]; Region: COG0517 323097005844 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 323097005845 BON domain; Region: BON; cl02771 323097005846 NAD(P)H:flavin oxidoreductase-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; Region: NADPH_oxidoreductase_1; cd02150 323097005847 putative FMN binding site [chemical binding]; other site 323097005848 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097005849 Response regulator receiver domain; Region: Response_reg; pfam00072 323097005850 active site 323097005851 phosphorylation site [posttranslational modification] 323097005852 intermolecular recognition site; other site 323097005853 dimerization interface [polypeptide binding]; other site 323097005854 response regulator FixJ; Provisional; Region: fixJ; PRK09390 323097005855 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097005856 active site 323097005857 phosphorylation site [posttranslational modification] 323097005858 intermolecular recognition site; other site 323097005859 dimerization interface [polypeptide binding]; other site 323097005860 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 323097005861 DNA binding residues [nucleotide binding] 323097005862 dimerization interface [polypeptide binding]; other site 323097005863 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 323097005864 PAS fold; Region: PAS_3; pfam08447 323097005865 putative active site [active] 323097005866 heme pocket [chemical binding]; other site 323097005867 PAS domain S-box; Region: sensory_box; TIGR00229 323097005868 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 323097005869 putative active site [active] 323097005870 heme pocket [chemical binding]; other site 323097005871 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 323097005872 dimer interface [polypeptide binding]; other site 323097005873 phosphorylation site [posttranslational modification] 323097005874 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 323097005875 ATP binding site [chemical binding]; other site 323097005876 Mg2+ binding site [ion binding]; other site 323097005877 G-X-G motif; other site 323097005878 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 323097005879 BON domain; Region: BON; cl02771 323097005880 BON domain; Region: BON; cl02771 323097005881 Domain of unknown function DUF302; Region: DUF302; cl01364 323097005882 FOG: CBS domain [General function prediction only]; Region: COG0517 323097005883 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 323097005884 CHAD domain; Region: CHAD; cl10506 323097005885 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 323097005886 Predicted kinase [General function prediction only]; Region: COG0645 323097005887 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097005888 active site 323097005889 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 323097005890 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 323097005891 putative NAD(P) binding site [chemical binding]; other site 323097005892 putative substrate binding site [chemical binding]; other site 323097005893 catalytic Zn binding site [ion binding]; other site 323097005894 structural Zn binding site [ion binding]; other site 323097005895 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 323097005896 putative dimer interface [polypeptide binding]; other site 323097005897 FOG: CBS domain [General function prediction only]; Region: COG0517 323097005898 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_assoc; cd04612 323097005899 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 323097005900 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097005901 CoA-ligase; Region: Ligase_CoA; cl02894 323097005902 ATP-grasp domain; Region: ATP-grasp_4; cl03087 323097005903 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 323097005904 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 323097005905 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 323097005906 Permease; Region: Permease; cl00510 323097005907 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 323097005908 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 323097005909 Walker A/P-loop; other site 323097005910 ATP binding site [chemical binding]; other site 323097005911 Q-loop/lid; other site 323097005912 ABC transporter signature motif; other site 323097005913 Walker B; other site 323097005914 D-loop; other site 323097005915 H-loop/switch region; other site 323097005916 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 323097005917 mce related protein; Region: MCE; pfam02470 323097005918 Protein of unknown function (DUF330); Region: DUF330; cl01135 323097005919 Cytochrome c; Region: Cytochrom_C; cl11414 323097005920 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 323097005921 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 323097005922 Ligand Binding Site [chemical binding]; other site 323097005923 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 323097005924 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 323097005925 catalytic Zn binding site [ion binding]; other site 323097005926 structural Zn binding site [ion binding]; other site 323097005927 NAD(P) binding site [chemical binding]; other site 323097005928 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 323097005929 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 323097005930 S-adenosylmethionine binding site [chemical binding]; other site 323097005931 Erythromycin esterase homolog [General function prediction only]; Region: COG2312 323097005932 Erythromycin esterase; Region: Erythro_esteras; pfam05139 323097005933 Protein required for attachment to host cells; Region: Host_attach; cl02398 323097005934 FOG: CBS domain [General function prediction only]; Region: COG0517 323097005935 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 323097005936 BON domain; Region: BON; cl02771 323097005937 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 323097005938 Ligand Binding Site [chemical binding]; other site 323097005939 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 323097005940 OpgC protein; Region: OpgC_C; cl00792 323097005941 Chromate transporter; Region: Chromate_transp; pfam02417 323097005942 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 323097005943 Chromate transporter; Region: Chromate_transp; pfam02417 323097005944 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323097005945 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097005946 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097005947 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 323097005948 Cytochrome c; Region: Cytochrom_C; cl11414 323097005949 FOG: CBS domain [General function prediction only]; Region: COG0517 323097005950 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 323097005951 BON domain; Region: BON; cl02771 323097005952 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 323097005953 Ligand Binding Site [chemical binding]; other site 323097005954 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 323097005955 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 323097005956 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 323097005957 transcriptional regulator FixK; Provisional; Region: fixK; PRK09391 323097005958 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 323097005959 ligand binding site [chemical binding]; other site 323097005960 flexible hinge region; other site 323097005961 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 323097005962 putative switch regulator; other site 323097005963 non-specific DNA interactions [nucleotide binding]; other site 323097005964 DNA binding site [nucleotide binding] 323097005965 sequence specific DNA binding site [nucleotide binding]; other site 323097005966 putative cAMP binding site [chemical binding]; other site 323097005967 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097005968 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323097005969 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097005970 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323097005971 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097005972 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097005973 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097005974 Ion channel; Region: Ion_trans_2; cl11596 323097005975 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 323097005976 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 323097005977 Helix-turn-helix domains; Region: HTH; cl00088 323097005978 Transposase, Mutator family; Region: Transposase_mut; pfam00872 323097005979 Staphylococcal nuclease homologues; Region: SNc; smart00318 323097005980 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 323097005981 Catalytic site; other site 323097005982 HEPN domain; Region: HEPN; cl00824 323097005983 Competence protein CoiA-like family; Region: CoiA; cl11541 323097005984 RES domain; Region: RES; cl02411 323097005985 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 323097005986 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 323097005987 Walker A motif; other site 323097005988 ATP binding site [chemical binding]; other site 323097005989 Walker B motif; other site 323097005990 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 323097005991 active site 323097005992 metal binding site [ion binding]; metal-binding site 323097005993 RES domain; Region: RES; cl02411 323097005994 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 323097005995 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 323097005996 ATP binding site [chemical binding]; other site 323097005997 putative Mg++ binding site [ion binding]; other site 323097005998 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097005999 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 323097006000 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 323097006001 nudix motif; other site 323097006002 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 323097006003 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 323097006004 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097006005 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 323097006006 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097006007 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097006008 Q-loop/lid; other site 323097006009 Predicted ATPases [General function prediction only]; Region: COG1106 323097006010 ABC transporter signature motif; other site 323097006011 Walker B; other site 323097006012 D-loop; other site 323097006013 H-loop/switch region; other site 323097006014 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097006015 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 323097006016 Family description; Region: UvrD_C_2; cl15862 323097006017 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 323097006018 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097006019 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 323097006020 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323097006021 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097006022 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097006023 Domain of unknown function (DUF4016); Region: DUF4016; pfam13208 323097006024 tellurium resistance terB-like protein; Region: terB_like; cl11965 323097006025 metal binding site [ion binding]; metal-binding site 323097006026 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 323097006027 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 323097006028 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 323097006029 ATP binding site [chemical binding]; other site 323097006030 putative Mg++ binding site [ion binding]; other site 323097006031 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097006032 Integrase core domain; Region: rve; cl01316 323097006033 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 323097006034 acyl-CoA synthetase; Validated; Region: PRK08162 323097006035 AMP-binding enzyme; Region: AMP-binding; cl15778 323097006036 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 323097006037 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 323097006038 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 323097006039 active site 323097006040 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 323097006041 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 323097006042 active site 323097006043 HIGH motif; other site 323097006044 KMSKS motif; other site 323097006045 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 323097006046 tRNA binding surface [nucleotide binding]; other site 323097006047 anticodon binding site; other site 323097006048 DNA polymerase III subunit delta'; Validated; Region: PRK07471 323097006049 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097006050 thymidylate kinase; Validated; Region: tmk; PRK00698 323097006051 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 323097006052 TMP-binding site; other site 323097006053 ATP-binding site [chemical binding]; other site 323097006054 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 323097006055 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 323097006056 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 323097006057 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 323097006058 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 323097006059 integrase; Provisional; Region: PRK09692 323097006060 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 323097006061 active site 323097006062 Int/Topo IB signature motif; other site 323097006063 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 323097006064 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 323097006065 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 323097006066 Phage Terminase; Region: Terminase_1; pfam03354 323097006067 Phage terminase, small subunit; Region: Terminase_4; cl01525 323097006068 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 323097006069 oligomerization interface [polypeptide binding]; other site 323097006070 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 323097006071 Phage capsid family; Region: Phage_capsid; pfam05065 323097006072 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 323097006073 Phage-related protein [Function unknown]; Region: COG4695; cl01923 323097006074 Phage portal protein; Region: Phage_portal; pfam04860 323097006075 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 323097006076 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097006077 Walker A motif; other site 323097006078 ATP binding site [chemical binding]; other site 323097006079 Walker B motif; other site 323097006080 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 323097006081 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 protein; Region: CSP_CDS; cd04458 323097006082 DNA-binding site [nucleotide binding]; DNA binding site 323097006083 RNA-binding motif; other site 323097006084 Cupin domain; Region: Cupin_2; cl09118 323097006085 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 323097006086 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 323097006087 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 323097006088 LamB/YcsF family; Region: LamB_YcsF; cl00664 323097006089 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 323097006090 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 323097006091 NADP binding site [chemical binding]; other site 323097006092 dimer interface [polypeptide binding]; other site 323097006093 Integral membrane protein TerC family; Region: TerC; cl10468 323097006094 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 323097006095 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 323097006096 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 323097006097 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097006098 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; cl01548 323097006099 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 323097006100 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 323097006101 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 323097006102 AMP-binding enzyme; Region: AMP-binding; cl15778 323097006103 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 323097006104 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 323097006105 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 323097006106 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 323097006107 ATP binding site [chemical binding]; other site 323097006108 putative Mg++ binding site [ion binding]; other site 323097006109 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 323097006110 nucleotide binding region [chemical binding]; other site 323097006111 ATP-binding site [chemical binding]; other site 323097006112 TRCF domain; Region: TRCF; cl04088 323097006113 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 323097006114 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 323097006115 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 323097006116 generic binding surface II; other site 323097006117 ssDNA binding site; other site 323097006118 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 323097006119 ATP binding site [chemical binding]; other site 323097006120 putative Mg++ binding site [ion binding]; other site 323097006121 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 323097006122 nucleotide binding region [chemical binding]; other site 323097006123 ATP-binding site [chemical binding]; other site 323097006124 Protein of unknown function (DUF502); Region: DUF502; cl01107 323097006125 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 323097006126 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 323097006127 glutaminase active site [active] 323097006128 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 323097006129 dimer interface [polypeptide binding]; other site 323097006130 active site 323097006131 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 323097006132 dimer interface [polypeptide binding]; other site 323097006133 active site 323097006134 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097006135 DTW domain; Region: DTW; cl01221 323097006136 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 323097006137 Protein export membrane protein; Region: SecD_SecF; cl14618 323097006138 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 323097006139 Protein export membrane protein; Region: SecD_SecF; cl14618 323097006140 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 323097006141 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097006142 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097006143 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 323097006144 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 323097006145 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 323097006146 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 323097006147 dimer interface [polypeptide binding]; other site 323097006148 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097006149 catalytic residue [active] 323097006150 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 323097006151 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 323097006152 Walker A/P-loop; other site 323097006153 ATP binding site [chemical binding]; other site 323097006154 Q-loop/lid; other site 323097006155 ABC transporter signature motif; other site 323097006156 Walker B; other site 323097006157 D-loop; other site 323097006158 H-loop/switch region; other site 323097006159 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 323097006160 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 323097006161 dimer interface [polypeptide binding]; other site 323097006162 conserved gate region; other site 323097006163 putative PBP binding loops; other site 323097006164 ABC-ATPase subunit interface; other site 323097006165 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 323097006166 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 323097006167 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 323097006168 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 323097006169 substrate binding pocket [chemical binding]; other site 323097006170 membrane-bound complex binding site; other site 323097006171 hinge residues; other site 323097006172 cystathionine beta-lyase; Provisional; Region: PRK05967 323097006173 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 323097006174 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323097006175 catalytic residue [active] 323097006176 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 323097006177 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 323097006178 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 323097006179 PhoU domain; Region: PhoU; pfam01895 323097006180 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 323097006181 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 323097006182 Ligand binding site; other site 323097006183 Putative Catalytic site; other site 323097006184 DXD motif; other site 323097006185 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 323097006186 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 323097006187 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 323097006188 Transglycosylase; Region: Transgly; cl07896 323097006189 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 323097006190 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 323097006191 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 323097006192 MG2 domain; Region: A2M_N; pfam01835 323097006193 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 323097006194 Alpha-2-macroglobulin family; Region: A2M; pfam00207 323097006195 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 323097006196 surface patch; other site 323097006197 thioester region; other site 323097006198 specificity defining residues; other site 323097006199 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 323097006200 dimer interface [polypeptide binding]; other site 323097006201 ssDNA binding site [nucleotide binding]; other site 323097006202 tetramer (dimer of dimers) interface [polypeptide binding]; other site 323097006203 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 323097006204 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 323097006205 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 323097006206 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 323097006207 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 323097006208 BA14K-like protein; Region: BA14K; pfam07886 323097006209 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 323097006210 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 323097006211 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 323097006212 Transcriptional regulator; Region: Transcrip_reg; cl00361 323097006213 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 323097006214 active site 323097006215 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 323097006216 TSCPD domain; Region: TSCPD; cl14834 323097006217 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 323097006218 Integrase core domain; Region: rve; cl01316 323097006219 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 323097006220 TniQ; Region: TniQ; pfam06527 323097006221 SEC-C motif; Region: SEC-C; pfam02810 323097006222 TIR domain; Region: TIR_2; cl15770 323097006223 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 323097006224 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 323097006225 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 323097006226 putative S-transferase; Provisional; Region: PRK11752 323097006227 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 323097006228 C-terminal domain interface [polypeptide binding]; other site 323097006229 GSH binding site (G-site) [chemical binding]; other site 323097006230 dimer interface [polypeptide binding]; other site 323097006231 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 323097006232 dimer interface [polypeptide binding]; other site 323097006233 N-terminal domain interface [polypeptide binding]; other site 323097006234 active site 323097006235 short chain dehydrogenase; Provisional; Region: PRK12828 323097006236 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097006237 NAD(P) binding site [chemical binding]; other site 323097006238 active site 323097006239 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 323097006240 active site 1 [active] 323097006241 dimer interface [polypeptide binding]; other site 323097006242 active site 2 [active] 323097006243 Uncharacterized conserved protein (DUF2161); Region: DUF2161; cl02298 323097006244 hypothetical protein; Provisional; Region: PRK10756 323097006245 CreA protein; Region: CreA; pfam05981 323097006246 hypothetical protein; Provisional; Region: PRK06132 323097006247 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 323097006248 hypothetical protein; Provisional; Region: PRK06132 323097006249 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 323097006250 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 323097006251 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 323097006252 folate binding site [chemical binding]; other site 323097006253 NADP+ binding site [chemical binding]; other site 323097006254 DoxX; Region: DoxX; cl00976 323097006255 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 323097006256 Malic enzyme, N-terminal domain; Region: malic; pfam00390 323097006257 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 323097006258 putative NAD(P) binding site [chemical binding]; other site 323097006259 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 323097006260 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 323097006261 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 323097006262 dimer interface [polypeptide binding]; other site 323097006263 anticodon binding site; other site 323097006264 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 the...; Region: AspRS_core; cd00777 323097006265 homodimer interface [polypeptide binding]; other site 323097006266 motif 1; other site 323097006267 active site 323097006268 motif 2; other site 323097006269 GAD domain; Region: GAD; pfam02938 323097006270 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 attaches...; Region: class_II_aaRS-like_core; cl00268 323097006271 active site 323097006272 motif 3; other site 323097006273 ribonuclease D; Region: rnd; TIGR01388 323097006274 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 323097006275 putative active site [active] 323097006276 catalytic site [active] 323097006277 putative substrate binding site [chemical binding]; other site 323097006278 HRDC domain; Region: HRDC; cl02578 323097006279 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 323097006280 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 323097006281 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 323097006282 [2Fe-2S] cluster binding site [ion binding]; other site 323097006283 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 323097006284 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 323097006285 polyphosphate kinase; Provisional; Region: PRK05443 323097006286 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 323097006287 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 323097006288 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 323097006289 putative domain interface [polypeptide binding]; other site 323097006290 putative active site [active] 323097006291 catalytic site [active] 323097006292 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 323097006293 putative domain interface [polypeptide binding]; other site 323097006294 putative active site [active] 323097006295 catalytic site [active] 323097006296 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097006297 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 323097006298 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 323097006299 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 323097006300 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 323097006301 dimerization interface [polypeptide binding]; other site 323097006302 putative ATP binding site [chemical binding]; other site 323097006303 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 323097006304 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 323097006305 active site 323097006306 substrate binding site [chemical binding]; other site 323097006307 cosubstrate binding site; other site 323097006308 catalytic site [active] 323097006309 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 protein; Region: CSP_CDS; cd04458 323097006310 DNA-binding site [nucleotide binding]; DNA binding site 323097006311 RNA-binding motif; other site 323097006312 Integral membrane protein TerC family; Region: TerC; cl10468 323097006313 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 323097006314 active site 323097006315 multimer interface [polypeptide binding]; other site 323097006316 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 323097006317 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 323097006318 ATP-grasp domain; Region: ATP-grasp_4; cl03087 323097006319 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 323097006320 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 323097006321 carboxyltransferase (CT) interaction site; other site 323097006322 biotinylation site [posttranslational modification]; other site 323097006323 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 323097006324 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 323097006325 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 323097006326 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 323097006327 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 323097006328 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 323097006329 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 323097006330 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 323097006331 Int/Topo IB signature motif; other site 323097006332 Transposase domain (DUF772); Region: DUF772; cl15789 323097006333 Transposase domain (DUF772); Region: DUF772; cl15789 323097006334 Phage portal protein; Region: Phage_portal; pfam04860 323097006335 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 323097006336 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 protein; Region: CSP_CDS; cd04458 323097006337 DNA-binding site [nucleotide binding]; DNA binding site 323097006338 RNA-binding motif; other site 323097006339 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 protein; Region: CSP_CDS; cd04458 323097006340 DNA-binding site [nucleotide binding]; DNA binding site 323097006341 RNA-binding motif; other site 323097006342 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323097006343 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 323097006344 dimer interface [polypeptide binding]; other site 323097006345 active site 323097006346 metal binding site [ion binding]; metal-binding site 323097006347 glutathione binding site [chemical binding]; other site 323097006348 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 protein; Region: CSP_CDS; cd04458 323097006349 DNA-binding site [nucleotide binding]; DNA binding site 323097006350 RNA-binding motif; other site 323097006351 Phage portal protein; Region: Phage_portal; pfam04860 323097006352 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 323097006353 Phage capsid family; Region: Phage_capsid; pfam05065 323097006354 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 323097006355 Phage Terminase; Region: Terminase_1; pfam03354 323097006356 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 323097006357 polymerase nucleotide-binding site; other site 323097006358 DNA-binding residues [nucleotide binding]; DNA binding site 323097006359 nucleotide binding site [chemical binding]; other site 323097006360 primase nucleotide-binding site [nucleotide binding]; other site 323097006361 Virulence-associated protein E; Region: VirE; pfam05272 323097006362 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 323097006363 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 323097006364 DNA binding site [nucleotide binding] 323097006365 Int/Topo IB signature motif; other site 323097006366 active site 323097006367 Transposase domain (DUF772); Region: DUF772; cl15789 323097006368 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097006369 Transposase domain (DUF772); Region: DUF772; cl15789 323097006370 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 323097006371 active site 323097006372 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 323097006373 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 323097006374 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 323097006375 Acylphosphatase; Region: Acylphosphatase; cl00551 323097006376 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 323097006377 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 323097006378 ATP-grasp domain; Region: ATP-grasp_4; cl03087 323097006379 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 323097006380 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 323097006381 carboxyltransferase (CT) interaction site; other site 323097006382 biotinylation site [posttranslational modification]; other site 323097006383 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 323097006384 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 323097006385 dimer interface [polypeptide binding]; other site 323097006386 decamer (pentamer of dimers) interface [polypeptide binding]; other site 323097006387 catalytic triad [active] 323097006388 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 323097006389 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 323097006390 substrate binding site [chemical binding]; other site 323097006391 catalytic Zn binding site [ion binding]; other site 323097006392 NAD binding site [chemical binding]; other site 323097006393 structural Zn binding site [ion binding]; other site 323097006394 dimer interface [polypeptide binding]; other site 323097006395 CHASE2 domain; Region: CHASE2; cl01732 323097006396 cyclase homology domain; Region: CHD; cd07302 323097006397 nucleotidyl binding site; other site 323097006398 metal binding site [ion binding]; metal-binding site 323097006399 dimer interface [polypeptide binding]; other site 323097006400 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 323097006401 Tetratricopeptide repeat; Region: TPR_16; pfam13432 323097006402 binding surface 323097006403 TPR motif; other site 323097006404 Protein of unknown function (DUF2860); Region: DUF2860; pfam11059 323097006405 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 323097006406 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 323097006407 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 323097006408 PAS domain S-box; Region: sensory_box; TIGR00229 323097006409 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 323097006410 putative active site [active] 323097006411 heme pocket [chemical binding]; other site 323097006412 PAS fold; Region: PAS_4; pfam08448 323097006413 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323097006414 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 323097006415 ATP binding site [chemical binding]; other site 323097006416 Mg2+ binding site [ion binding]; other site 323097006417 G-X-G motif; other site 323097006418 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 323097006419 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 323097006420 dimer interface [polypeptide binding]; other site 323097006421 PYR/PP interface [polypeptide binding]; other site 323097006422 TPP binding site [chemical binding]; other site 323097006423 substrate binding site [chemical binding]; other site 323097006424 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 323097006425 TPP-binding site; other site 323097006426 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 323097006427 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 323097006428 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 323097006429 tetramer interface [polypeptide binding]; other site 323097006430 active site 323097006431 Mg2+/Mn2+ binding site [ion binding]; other site 323097006432 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 323097006433 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 323097006434 aspartate aminotransferase; Provisional; Region: PRK05764 323097006435 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 323097006436 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097006437 homodimer interface [polypeptide binding]; other site 323097006438 catalytic residue [active] 323097006439 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 323097006440 Peptidase family M48; Region: Peptidase_M48; cl12018 323097006441 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 323097006442 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 323097006443 catalytic residues [active] 323097006444 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 323097006445 trimer interface [polypeptide binding]; other site 323097006446 active site 323097006447 dimer interface [polypeptide binding]; other site 323097006448 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 323097006449 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 323097006450 carboxyltransferase (CT) interaction site; other site 323097006451 biotinylation site [posttranslational modification]; other site 323097006452 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 323097006453 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 323097006454 ATP-grasp domain; Region: ATP-grasp_4; cl03087 323097006455 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 323097006456 CHASE3 domain; Region: CHASE3; cl05000 323097006457 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 323097006458 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 323097006459 ATP binding site [chemical binding]; other site 323097006460 Mg2+ binding site [ion binding]; other site 323097006461 G-X-G motif; other site 323097006462 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 323097006463 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097006464 active site 323097006465 phosphorylation site [posttranslational modification] 323097006466 intermolecular recognition site; other site 323097006467 dimerization interface [polypeptide binding]; other site 323097006468 Response regulator receiver domain; Region: Response_reg; pfam00072 323097006469 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097006470 active site 323097006471 phosphorylation site [posttranslational modification] 323097006472 intermolecular recognition site; other site 323097006473 dimerization interface [polypeptide binding]; other site 323097006474 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 323097006475 Histidine kinase; Region: HisKA_2; cl06527 323097006476 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 323097006477 ATP binding site [chemical binding]; other site 323097006478 Mg2+ binding site [ion binding]; other site 323097006479 G-X-G motif; other site 323097006480 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 323097006481 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 323097006482 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 323097006483 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 323097006484 Walker A/P-loop; other site 323097006485 ATP binding site [chemical binding]; other site 323097006486 Q-loop/lid; other site 323097006487 ABC transporter signature motif; other site 323097006488 Walker B; other site 323097006489 D-loop; other site 323097006490 H-loop/switch region; other site 323097006491 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 323097006492 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 323097006493 FtsX-like permease family; Region: FtsX; cl15850 323097006494 prolyl-tRNA synthetase; Provisional; Region: PRK12325 323097006495 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 formation of...; Region: ProRS_core_prok; cd00779 323097006496 dimer interface [polypeptide binding]; other site 323097006497 motif 1; other site 323097006498 active site 323097006499 motif 2; other site 323097006500 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 attaches...; Region: class_II_aaRS-like_core; cl00268 323097006501 active site 323097006502 motif 3; other site 323097006503 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 323097006504 anticodon binding site; other site 323097006505 Bacterial Ig-like domain; Region: Big_5; cl01012 323097006506 Copper resistance protein D; Region: CopD; cl00563 323097006507 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 323097006508 Protein of unknown function (DUF461); Region: DUF461; cl01071 323097006509 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 323097006510 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 323097006511 N-terminal plug; other site 323097006512 ligand-binding site [chemical binding]; other site 323097006513 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 323097006514 Protein of unknown function (DUF1467); Region: DUF1467; cl11569 323097006515 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323097006516 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 323097006517 dimer interface [polypeptide binding]; other site 323097006518 substrate binding site [chemical binding]; other site 323097006519 metal binding site [ion binding]; metal-binding site 323097006520 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 323097006521 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 323097006522 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 323097006523 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 323097006524 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 323097006525 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 323097006526 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 323097006527 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 323097006528 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 323097006529 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 323097006530 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 323097006531 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 323097006532 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 323097006533 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 323097006534 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 323097006535 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 323097006536 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 323097006537 4Fe-4S binding domain; Region: Fer4; cl02805 323097006538 4Fe-4S binding domain; Region: Fer4; cl02805 323097006539 NADH dehydrogenase; Region: NADHdh; cl00469 323097006540 NADH dehydrogenase subunit G; Validated; Region: PRK09130 323097006541 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 323097006542 catalytic loop [active] 323097006543 iron binding site [ion binding]; other site 323097006544 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 323097006545 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 323097006546 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 323097006547 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 323097006548 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 323097006549 SLBB domain; Region: SLBB; pfam10531 323097006550 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 323097006551 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 323097006552 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 323097006553 putative dimer interface [polypeptide binding]; other site 323097006554 [2Fe-2S] cluster binding site [ion binding]; other site 323097006555 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097006556 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 323097006557 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 323097006558 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 323097006559 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 323097006560 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 323097006561 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 323097006562 IHF - DNA interface [nucleotide binding]; other site 323097006563 IHF dimer interface [polypeptide binding]; other site 323097006564 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 323097006565 peptidase T; Region: peptidase-T; TIGR01882 323097006566 metal binding site [ion binding]; metal-binding site 323097006567 dimer interface [polypeptide binding]; other site 323097006568 Methyltransferase domain; Region: Methyltransf_31; pfam13847 323097006569 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 323097006570 S-adenosylmethionine binding site [chemical binding]; other site 323097006571 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 323097006572 Found in ATP-dependent protease La (LON); Region: LON; smart00464 323097006573 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 323097006574 Walker A motif; other site 323097006575 ATP binding site [chemical binding]; other site 323097006576 Walker B motif; other site 323097006577 arginine finger; other site 323097006578 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 323097006579 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 323097006580 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 323097006581 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 323097006582 Walker A motif; other site 323097006583 ATP binding site [chemical binding]; other site 323097006584 Walker B motif; other site 323097006585 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 323097006586 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 323097006587 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 323097006588 oligomer interface [polypeptide binding]; other site 323097006589 active site residues [active] 323097006590 trigger factor; Provisional; Region: tig; PRK01490 323097006591 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 323097006592 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 323097006593 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 323097006594 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 323097006595 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 323097006596 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 323097006597 putative carbohydrate kinase; Provisional; Region: PRK10565 323097006598 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 323097006599 putative substrate binding site [chemical binding]; other site 323097006600 putative ATP binding site [chemical binding]; other site 323097006601 Nitrogen regulatory protein P-II; Region: P-II; cl00412 323097006602 Nitrogen regulatory protein P-II; Region: P-II; smart00938 323097006603 glutamine synthetase; Provisional; Region: glnA; PRK09469 323097006604 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 323097006605 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 323097006606 Baculovirus polyhedron envelope protein, PEP, C terminus; Region: Baculo_PEP_C; pfam04513 323097006607 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 323097006608 Helix-turn-helix domains; Region: HTH; cl00088 323097006609 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 323097006610 dimer interface [polypeptide binding]; other site 323097006611 allosteric magnesium binding site [ion binding]; other site 323097006612 active site 323097006613 aspartate-rich active site metal binding site; other site 323097006614 Schiff base residues; other site 323097006615 RDD family; Region: RDD; cl00746 323097006616 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 323097006617 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 323097006618 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 323097006619 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 323097006620 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 323097006621 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 323097006622 ArsC family; Region: ArsC; pfam03960 323097006623 catalytic residues [active] 323097006624 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 323097006625 amphipathic channel; other site 323097006626 Asn-Pro-Ala signature motifs; other site 323097006627 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 323097006628 putative DNA binding site [nucleotide binding]; other site 323097006629 putative Zn2+ binding site [ion binding]; other site 323097006630 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 323097006631 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 in DNA...; Region: TOP4c; cd00187 323097006632 CAP-like domain; other site 323097006633 active site 323097006634 primary dimer interface [polypeptide binding]; other site 323097006635 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 323097006636 Recombination protein O N terminal; Region: RecO_N; cl15812 323097006637 Recombination protein O C terminal; Region: RecO_C; pfam02565 323097006638 GTPase Era; Reviewed; Region: era; PRK00089 323097006639 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 323097006640 G1 box; other site 323097006641 GTP/Mg2+ binding site [chemical binding]; other site 323097006642 Switch I region; other site 323097006643 G2 box; other site 323097006644 Switch II region; other site 323097006645 G3 box; other site 323097006646 G4 box; other site 323097006647 G5 box; other site 323097006648 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 323097006649 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 323097006650 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 323097006651 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 323097006652 dimerization interface [polypeptide binding]; other site 323097006653 active site 323097006654 metal binding site [ion binding]; metal-binding site 323097006655 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 323097006656 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 323097006657 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 323097006658 Catalytic site [active] 323097006659 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 323097006660 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 323097006661 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 323097006662 active site 323097006663 hydrophilic channel; other site 323097006664 dimerization interface [polypeptide binding]; other site 323097006665 catalytic residues [active] 323097006666 active site lid [active] 323097006667 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 323097006668 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 323097006669 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 323097006670 synthetase active site [active] 323097006671 NTP binding site [chemical binding]; other site 323097006672 metal binding site [ion binding]; metal-binding site 323097006673 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 323097006674 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 323097006675 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 323097006676 Uncharacterized conserved protein [Function unknown]; Region: COG1432 323097006677 LabA_like proteins; Region: LabA; cd10911 323097006678 putative metal binding site [ion binding]; other site 323097006679 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 323097006680 Fe-S cluster binding site [ion binding]; other site 323097006681 DNA binding site [nucleotide binding] 323097006682 active site 323097006683 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 323097006684 SmpB-tmRNA interface; other site 323097006685 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 323097006686 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 323097006687 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 323097006688 dimer interface [polypeptide binding]; other site 323097006689 active site 323097006690 catalytic residue [active] 323097006691 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 323097006692 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 catalyze...; Region: LT_GEWL; cd00254 323097006693 N-acetyl-D-glucosamine binding site [chemical binding]; other site 323097006694 catalytic residue [active] 323097006695 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 323097006696 Porin subfamily; Region: Porin_2; pfam02530 323097006697 Porin subfamily; Region: Porin_2; pfam02530 323097006698 ST7 protein; Region: ST7; pfam04184 323097006699 orc1/cdc6 family replication initiation protein; Region: TIGR02928 323097006700 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 323097006701 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 323097006702 GatB domain; Region: GatB_Yqey; cl11497 323097006703 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097006704 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097006705 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 323097006706 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 323097006707 Amidase; Region: Amidase; cl11426 323097006708 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 323097006709 Nitronate monooxygenase; Region: NMO; pfam03060 323097006710 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 323097006711 FMN binding site [chemical binding]; other site 323097006712 substrate binding site [chemical binding]; other site 323097006713 putative catalytic residue [active] 323097006714 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 323097006715 CAAX protease self-immunity; Region: Abi; cl00558 323097006716 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 323097006717 active site 323097006718 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 323097006719 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 323097006720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097006721 dihydroorotase; Validated; Region: PRK09059 323097006722 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 323097006723 active site 323097006724 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 323097006725 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 323097006726 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 323097006727 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; cl00322 323097006728 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 323097006729 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 323097006730 S-adenosylmethionine binding site [chemical binding]; other site 323097006731 replicative DNA helicase; Provisional; Region: PRK09165 323097006732 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 323097006733 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 323097006734 Walker A motif; other site 323097006735 ATP binding site [chemical binding]; other site 323097006736 Walker B motif; other site 323097006737 DNA binding loops [nucleotide binding] 323097006738 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 323097006739 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 323097006740 active site 323097006741 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 323097006742 dimer interface [polypeptide binding]; other site 323097006743 substrate binding site [chemical binding]; other site 323097006744 catalytic residues [active] 323097006745 DNA repair protein RadA; Provisional; Region: PRK11823 323097006746 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097006747 Walker A motif; other site 323097006748 ATP binding site [chemical binding]; other site 323097006749 Walker B motif; other site 323097006750 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 323097006751 Colicin V production protein; Region: Colicin_V; cl00567 323097006752 amidophosphoribosyltransferase; Provisional; Region: PRK09123 323097006753 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 323097006754 active site 323097006755 tetramer interface [polypeptide binding]; other site 323097006756 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323097006757 active site 323097006758 Protease prsW family; Region: PrsW-protease; cl15823 323097006759 acid-resistance membrane protein; Provisional; Region: PRK10209 323097006760 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 323097006761 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 323097006762 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 attaches...; Region: class_II_aaRS-like_core; cl00268 323097006763 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 323097006764 motif 1; other site 323097006765 dimer interface [polypeptide binding]; other site 323097006766 active site 323097006767 motif 2; other site 323097006768 motif 3; other site 323097006769 elongation factor P; Validated; Region: PRK00529 323097006770 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 323097006771 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 323097006772 RNA binding site [nucleotide binding]; other site 323097006773 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 323097006774 RNA binding site [nucleotide binding]; other site 323097006775 Peptidase family M23; Region: Peptidase_M23; pfam01551 323097006776 lytic murein transglycosylase; Region: MltB_2; TIGR02283 323097006777 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 323097006778 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 323097006779 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 323097006780 homotrimer interaction site [polypeptide binding]; other site 323097006781 putative active site [active] 323097006782 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323097006783 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097006784 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097006785 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 323097006786 DHH family; Region: DHH; pfam01368 323097006787 DHHA1 domain; Region: DHHA1; pfam02272 323097006788 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 323097006789 putative active site [active] 323097006790 homoserine dehydrogenase; Provisional; Region: PRK06349 323097006791 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097006792 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 323097006793 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 323097006794 aminotransferase; Validated; Region: PRK09148 323097006795 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 323097006796 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097006797 homodimer interface [polypeptide binding]; other site 323097006798 catalytic residue [active] 323097006799 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 323097006800 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 323097006801 MAPEG family; Region: MAPEG; cl09190 323097006802 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 323097006803 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097006804 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 323097006805 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 323097006806 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 323097006807 Mg2+ binding site [ion binding]; other site 323097006808 G-X-G motif; other site 323097006809 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 323097006810 anchoring element; other site 323097006811 dimer interface [polypeptide binding]; other site 323097006812 ATP binding site [chemical binding]; other site 323097006813 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 323097006814 active site 323097006815 putative metal-binding site [ion binding]; other site 323097006816 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 323097006817 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 323097006818 hypothetical protein; Provisional; Region: PRK06185 323097006819 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097006820 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 323097006821 DEAD-like helicases superfamily; Region: DEXDc; smart00487 323097006822 ATP binding site [chemical binding]; other site 323097006823 Mg++ binding site [ion binding]; other site 323097006824 motif III; other site 323097006825 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 323097006826 nucleotide binding region [chemical binding]; other site 323097006827 ATP-binding site [chemical binding]; other site 323097006828 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323097006829 metal binding site [ion binding]; metal-binding site 323097006830 active site 323097006831 I-site; other site 323097006832 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 323097006833 Domain of unknown function DUF59; Region: DUF59; cl00941 323097006834 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 323097006835 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 323097006836 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323097006837 catalytic residue [active] 323097006838 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 323097006839 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 323097006840 FeS assembly ATPase SufC; Region: sufC; TIGR01978 323097006841 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 323097006842 Walker A/P-loop; other site 323097006843 ATP binding site [chemical binding]; other site 323097006844 Q-loop/lid; other site 323097006845 ABC transporter signature motif; other site 323097006846 Walker B; other site 323097006847 D-loop; other site 323097006848 H-loop/switch region; other site 323097006849 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 323097006850 putative ABC transporter; Region: ycf24; CHL00085 323097006851 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 323097006852 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 323097006853 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323097006854 catalytic residue [active] 323097006855 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 323097006856 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 323097006857 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 323097006858 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 323097006859 active site 323097006860 HIGH motif; other site 323097006861 dimer interface [polypeptide binding]; other site 323097006862 KMSKS motif; other site 323097006863 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 323097006864 RNA binding surface [nucleotide binding]; other site 323097006865 Protein of unknown function; Region: DUF3971; pfam13116 323097006866 AsmA-like C-terminal region; Region: AsmA_2; cl15864 323097006867 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 323097006868 catalytic triad [active] 323097006869 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 323097006870 Peptidase family M23; Region: Peptidase_M23; pfam01551 323097006871 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 323097006872 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 323097006873 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 323097006874 ABC transporter; Region: ABC_tran_2; pfam12848 323097006875 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 323097006876 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 323097006877 multifunctional aminopeptidase A; Provisional; Region: PRK00913 323097006878 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 323097006879 interface (dimer of trimers) [polypeptide binding]; other site 323097006880 Substrate-binding/catalytic site; other site 323097006881 Zn-binding sites [ion binding]; other site 323097006882 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 323097006883 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 323097006884 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 323097006885 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 323097006886 OstA-like protein; Region: OstA; cl00844 323097006887 Organic solvent tolerance protein; Region: OstA_C; pfam04453 323097006888 SurA N-terminal domain; Region: SurA_N_3; cl07813 323097006889 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 323097006890 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 323097006891 S-adenosylmethionine binding site [chemical binding]; other site 323097006892 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 323097006893 6-hydroxyhexanoate dehydrogenase; Region: 6_hydroxyhexanoate_dh_like; cd08240 323097006894 putative NAD(P) binding site [chemical binding]; other site 323097006895 catalytic Zn binding site [ion binding]; other site 323097006896 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 323097006897 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 323097006898 catalytic site [active] 323097006899 G-X2-G-X-G-K; other site 323097006900 hypothetical protein; Provisional; Region: PRK11820 323097006901 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 323097006902 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 323097006903 YceG-like family; Region: YceG; pfam02618 323097006904 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 323097006905 dimerization interface [polypeptide binding]; other site 323097006906 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 323097006907 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 323097006908 dimer interface [polypeptide binding]; other site 323097006909 active site 323097006910 Phosphopantetheine attachment site; Region: PP-binding; cl09936 323097006911 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 323097006912 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097006913 NAD(P) binding site [chemical binding]; other site 323097006914 active site 323097006915 Acyl transferase domain; Region: Acyl_transf_1; cl08282 323097006916 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 323097006917 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 323097006918 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 323097006919 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 323097006920 HNH endonuclease; Region: HNH_3; pfam13392 323097006921 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor...; Region: AP2; cl00033 323097006922 DNA binding site [nucleotide binding] 323097006923 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 323097006924 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 323097006925 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 323097006926 S-adenosylmethionine binding site [chemical binding]; other site 323097006927 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 323097006928 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323097006929 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323097006930 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 323097006931 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097006932 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 323097006933 Phage Tail Protein X; Region: Phage_tail_X; cl02088 323097006934 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 323097006935 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 323097006936 Phage tail tube protein FII; Region: Phage_tube; cl01390 323097006937 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 323097006938 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 323097006939 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 323097006940 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 323097006941 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 323097006942 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 323097006943 Baseplate J-like protein; Region: Baseplate_J; cl01294 323097006944 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 323097006945 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 323097006946 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 323097006947 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 323097006948 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 323097006949 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 323097006950 oligomer interface [polypeptide binding]; other site 323097006951 active site residues [active] 323097006952 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 323097006953 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; cl05448 323097006954 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 323097006955 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 323097006956 Transcription antiterminator [Transcription]; Region: NusG; COG0250 323097006957 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 323097006958 TSCPD domain; Region: TSCPD; cl14834 323097006959 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 323097006960 non-specific DNA binding site [nucleotide binding]; other site 323097006961 salt bridge; other site 323097006962 Predicted transcriptional regulator [Transcription]; Region: COG2932 323097006963 sequence-specific DNA binding site [nucleotide binding]; other site 323097006964 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 323097006965 Catalytic site [active] 323097006966 NADH dehydrogenase subunit G; Validated; Region: PRK08166 323097006967 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 323097006968 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 323097006969 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 323097006970 DNA binding site [nucleotide binding] 323097006971 Int/Topo IB signature motif; other site 323097006972 active site 323097006973 catalytic residues [active] 323097006974 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 323097006975 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 323097006976 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 323097006977 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 323097006978 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 323097006979 Walker A motif; other site 323097006980 ATP binding site [chemical binding]; other site 323097006981 Walker B motif; other site 323097006982 arginine finger; other site 323097006983 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 323097006984 Walker A motif; other site 323097006985 ATP binding site [chemical binding]; other site 323097006986 Walker B motif; other site 323097006987 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 323097006988 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 323097006989 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 323097006990 TadE-like protein; Region: TadE; cl10688 323097006991 Phasin protein; Region: Phasin_2; cl11491 323097006992 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 323097006993 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 323097006994 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 323097006995 HSP70 interaction site [polypeptide binding]; other site 323097006996 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 323097006997 pantoate--beta-alanine ligase; Region: panC; TIGR00018 323097006998 Pantoate-beta-alanine ligase; Region: PanC; cd00560 323097006999 active site 323097007000 ATP-binding site [chemical binding]; other site 323097007001 pantoate-binding site; other site 323097007002 HXXH motif; other site 323097007003 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 323097007004 Protein of unknown function (DUF1489); Region: DUF1489; cl11570 323097007005 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 323097007006 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 323097007007 putative C-terminal domain interface [polypeptide binding]; other site 323097007008 putative GSH binding site (G-site) [chemical binding]; other site 323097007009 putative dimer interface [polypeptide binding]; other site 323097007010 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 323097007011 putative N-terminal domain interface [polypeptide binding]; other site 323097007012 putative dimer interface [polypeptide binding]; other site 323097007013 putative substrate binding pocket (H-site) [chemical binding]; other site 323097007014 Protein of unknown function (DUF3253); Region: DUF3253; pfam11625 323097007015 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 323097007016 putative active site [active] 323097007017 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 323097007018 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 323097007019 active site 323097007020 catalytic tetrad [active] 323097007021 Predicted transcriptional regulator [Transcription]; Region: COG2944 323097007022 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 323097007023 non-specific DNA binding site [nucleotide binding]; other site 323097007024 salt bridge; other site 323097007025 sequence-specific DNA binding site [nucleotide binding]; other site 323097007026 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 323097007027 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 323097007028 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 323097007029 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 323097007030 active site 323097007031 interdomain interaction site; other site 323097007032 putative metal-binding site [ion binding]; other site 323097007033 nucleotide binding site [chemical binding]; other site 323097007034 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 323097007035 domain I; other site 323097007036 DNA binding groove [nucleotide binding] 323097007037 phosphate binding site [ion binding]; other site 323097007038 domain II; other site 323097007039 domain III; other site 323097007040 nucleotide binding site [chemical binding]; other site 323097007041 catalytic site [active] 323097007042 domain IV; other site 323097007043 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 323097007044 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 323097007045 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 323097007046 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 323097007047 ribonuclease R; Region: RNase_R; TIGR02063 323097007048 RNB domain; Region: RNB; pfam00773 323097007049 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 323097007050 RNA binding site [nucleotide binding]; other site 323097007051 Protein of unknown function (DUF983); Region: DUF983; cl02211 323097007052 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 323097007053 nudix motif; other site 323097007054 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 323097007055 response regulator PleD; Reviewed; Region: pleD; PRK09581 323097007056 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097007057 active site 323097007058 phosphorylation site [posttranslational modification] 323097007059 intermolecular recognition site; other site 323097007060 dimerization interface [polypeptide binding]; other site 323097007061 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097007062 active site 323097007063 phosphorylation site [posttranslational modification] 323097007064 intermolecular recognition site; other site 323097007065 dimerization interface [polypeptide binding]; other site 323097007066 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323097007067 metal binding site [ion binding]; metal-binding site 323097007068 active site 323097007069 I-site; other site 323097007070 Response regulator receiver domain; Region: Response_reg; pfam00072 323097007071 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097007072 active site 323097007073 phosphorylation site [posttranslational modification] 323097007074 intermolecular recognition site; other site 323097007075 dimerization interface [polypeptide binding]; other site 323097007076 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 323097007077 DNA polymerase IV; Provisional; Region: PRK02794 323097007078 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 323097007079 active site 323097007080 DNA binding site [nucleotide binding] 323097007081 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 323097007082 Helix-turn-helix domains; Region: HTH; cl00088 323097007083 Winged helix-turn helix; Region: HTH_29; pfam13551 323097007084 Helix-turn-helix domains; Region: HTH; cl00088 323097007085 Integrase core domain; Region: rve; cl01316 323097007086 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 323097007087 homotrimer interaction site [polypeptide binding]; other site 323097007088 putative active site [active] 323097007089 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_3; cd08585 323097007090 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 323097007091 putative active site [active] 323097007092 catalytic site [active] 323097007093 putative metal binding site [ion binding]; other site 323097007094 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 323097007095 Protein of unknown function, DUF482; Region: DUF482; pfam04339 323097007096 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 323097007097 HIT family signature motif; other site 323097007098 catalytic residue [active] 323097007099 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 323097007100 homodimer interaction site [polypeptide binding]; other site 323097007101 cofactor binding site; other site 323097007102 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 catalyze...; Region: LT_GEWL; cd00254 323097007103 N-acetyl-D-glucosamine binding site [chemical binding]; other site 323097007104 catalytic residue [active] 323097007105 Sporulation related domain; Region: SPOR; cl10051 323097007106 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 323097007107 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 323097007108 23S rRNA interface [nucleotide binding]; other site 323097007109 L3 interface [polypeptide binding]; other site 323097007110 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 323097007111 CoenzymeA binding site [chemical binding]; other site 323097007112 subunit interaction site [polypeptide binding]; other site 323097007113 PHB binding site; other site 323097007114 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097007115 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 323097007116 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 323097007117 homodimer interface [polypeptide binding]; other site 323097007118 substrate-cofactor binding pocket; other site 323097007119 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097007120 catalytic residue [active] 323097007121 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 323097007122 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 323097007123 putative substrate translocation pore; other site 323097007124 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 323097007125 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 323097007126 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 323097007127 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 323097007128 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 323097007129 Chain length determinant protein; Region: Wzz; cl15801 323097007130 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 323097007131 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 323097007132 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 323097007133 SLBB domain; Region: SLBB; pfam10531 323097007134 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 323097007135 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323097007136 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 323097007137 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097007138 Bacterial sugar transferase; Region: Bac_transf; cl00939 323097007139 Uncharacterized conserved protein [Function unknown]; Region: COG3268 323097007140 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097007141 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 323097007142 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 323097007143 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 323097007144 Int/Topo IB signature motif; other site 323097007145 active site 323097007146 DNA binding site [nucleotide binding] 323097007147 acetolactate synthase; Reviewed; Region: PRK08617 323097007148 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 323097007149 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 323097007150 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 323097007151 Phage Terminase; Region: Terminase_1; pfam03354 323097007152 Phage terminase, small subunit; Region: Terminase_4; cl01525 323097007153 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 323097007154 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 323097007155 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 323097007156 oligomerization interface [polypeptide binding]; other site 323097007157 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 323097007158 Phage capsid family; Region: Phage_capsid; pfam05065 323097007159 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 323097007160 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 323097007161 Phage-related protein [Function unknown]; Region: COG4695; cl01923 323097007162 Phage portal protein; Region: Phage_portal; pfam04860 323097007163 Transposase domain (DUF772); Region: DUF772; cl15789 323097007164 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097007165 Transposase domain (DUF772); Region: DUF772; cl15789 323097007166 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 323097007167 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 323097007168 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 323097007169 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 323097007170 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 323097007171 Helix-turn-helix domains; Region: HTH; cl00088 323097007172 Winged helix-turn helix; Region: HTH_29; pfam13551 323097007173 Helix-turn-helix domains; Region: HTH; cl00088 323097007174 Integrase core domain; Region: rve; cl01316 323097007175 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 323097007176 additional DNA contacts [nucleotide binding]; other site 323097007177 mismatch recognition site; other site 323097007178 active site 323097007179 zinc binding site [ion binding]; other site 323097007180 DNA intercalation site [nucleotide binding]; other site 323097007181 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 323097007182 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 323097007183 non-specific DNA binding site [nucleotide binding]; other site 323097007184 salt bridge; other site 323097007185 sequence-specific DNA binding site [nucleotide binding]; other site 323097007186 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 323097007187 polymerase nucleotide-binding site; other site 323097007188 DNA-binding residues [nucleotide binding]; DNA binding site 323097007189 nucleotide binding site [chemical binding]; other site 323097007190 primase nucleotide-binding site [nucleotide binding]; other site 323097007191 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 323097007192 Virulence-associated protein E; Region: VirE; pfam05272 323097007193 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 323097007194 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 323097007195 DNA binding site [nucleotide binding] 323097007196 Int/Topo IB signature motif; other site 323097007197 active site 323097007198 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 323097007199 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 323097007200 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 323097007201 Putative glucoamylase; Region: Glycoamylase; pfam10091 323097007202 Putative carbohydrate binding domain; Region: CBM_X; cl05621 323097007203 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 323097007204 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 323097007205 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 323097007206 Putative carbohydrate binding domain; Region: CBM_X; cl05621 323097007207 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 323097007208 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 323097007209 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 protein; Region: CSP_CDS; cd04458 323097007210 DNA-binding site [nucleotide binding]; DNA binding site 323097007211 RNA-binding motif; other site 323097007212 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 323097007213 PAS domain; Region: PAS_9; pfam13426 323097007214 putative active site [active] 323097007215 heme pocket [chemical binding]; other site 323097007216 Histidine kinase; Region: HisKA_2; cl06527 323097007217 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 323097007218 ATP binding site [chemical binding]; other site 323097007219 Mg2+ binding site [ion binding]; other site 323097007220 G-X-G motif; other site 323097007221 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 323097007222 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 323097007223 ligand binding site [chemical binding]; other site 323097007224 flexible hinge region; other site 323097007225 Helix-turn-helix domains; Region: HTH; cl00088 323097007226 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 323097007227 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 323097007228 tetramer interface [polypeptide binding]; other site 323097007229 catalytic Zn binding site [ion binding]; other site 323097007230 NADP binding site [chemical binding]; other site 323097007231 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 323097007232 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 323097007233 Helix-turn-helix domains; Region: HTH; cl00088 323097007234 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 323097007235 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097007236 Walker A/P-loop; other site 323097007237 ATP binding site [chemical binding]; other site 323097007238 Q-loop/lid; other site 323097007239 ABC transporter signature motif; other site 323097007240 Walker B; other site 323097007241 D-loop; other site 323097007242 H-loop/switch region; other site 323097007243 Domain of unknown function (DUF1971); Region: DUF1971; cl01451 323097007244 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_6; cd04619 323097007245 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 323097007246 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 323097007247 putative di-iron ligands [ion binding]; other site 323097007248 GMP synthase; Reviewed; Region: guaA; PRK00074 323097007249 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 323097007250 AMP/PPi binding site [chemical binding]; other site 323097007251 candidate oxyanion hole; other site 323097007252 catalytic triad [active] 323097007253 potential glutamine specificity residues [chemical binding]; other site 323097007254 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 323097007255 ATP Binding subdomain [chemical binding]; other site 323097007256 Ligand Binding sites [chemical binding]; other site 323097007257 Dimerization subdomain; other site 323097007258 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 323097007259 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; cl15754 323097007260 MAPEG family; Region: MAPEG; cl09190 323097007261 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 323097007262 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; cl09108 323097007263 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 key...; Region: CBS_pair_IMPDH; cd04601 323097007264 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 the guanine...; Region: IMPDH; cd00381 323097007265 active site 323097007266 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 323097007267 putative transporter; Provisional; Region: PRK10504 323097007268 putative substrate translocation pore; other site 323097007269 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 323097007270 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; cl15754 323097007271 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 323097007272 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 323097007273 ABC transporter ATPase component; Reviewed; Region: PRK11147 323097007274 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 323097007275 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 323097007276 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097007277 HI0933-like protein; Region: HI0933_like; pfam03486 323097007278 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097007279 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 323097007280 putative active site [active] 323097007281 putative catalytic site [active] 323097007282 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 323097007283 AMP-binding enzyme; Region: AMP-binding; cl15778 323097007284 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 323097007285 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097007286 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 323097007287 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 323097007288 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 323097007289 substrate binding site [chemical binding]; other site 323097007290 oxyanion hole (OAH) forming residues; other site 323097007291 trimer interface [polypeptide binding]; other site 323097007292 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 323097007293 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 323097007294 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 323097007295 substrate binding pocket [chemical binding]; other site 323097007296 FAD binding site [chemical binding]; other site 323097007297 catalytic base [active] 323097007298 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 323097007299 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 323097007300 tetrameric interface [polypeptide binding]; other site 323097007301 NAD binding site [chemical binding]; other site 323097007302 catalytic residues [active] 323097007303 acetyl-CoA acetyltransferase; Provisional; Region: PRK07516 323097007304 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 323097007305 active site 323097007306 SET domain; Region: SET; cl02566 323097007307 Phospholipid methyltransferase; Region: PEMT; cl00763 323097007308 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 323097007309 Tim44-like domain; Region: Tim44; cl09208 323097007310 Protein of unknown function (DUF1491); Region: DUF1491; cl11568 323097007311 adenylosuccinate lyase; Provisional; Region: PRK07492 323097007312 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 323097007313 tetramer interface [polypeptide binding]; other site 323097007314 active site 323097007315 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 323097007316 PilZ domain; Region: PilZ; cl01260 323097007317 PilZ domain; Region: PilZ; cl01260 323097007318 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 323097007319 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 323097007320 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 323097007321 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 323097007322 trimer interface [polypeptide binding]; other site 323097007323 putative metal binding site [ion binding]; other site 323097007324 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 323097007325 serine acetyltransferase; Provisional; Region: cysE; PRK11132 323097007326 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 323097007327 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 323097007328 trimer interface [polypeptide binding]; other site 323097007329 active site 323097007330 substrate binding site [chemical binding]; other site 323097007331 CoA binding site [chemical binding]; other site 323097007332 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 323097007333 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 323097007334 Zinc-finger domain; Region: zf-CHCC; cl01821 323097007335 salicylate hydroxylase; Provisional; Region: PRK08163 323097007336 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097007337 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 323097007338 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 323097007339 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 323097007340 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 323097007341 putative catalytic residue [active] 323097007342 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323097007343 active site 323097007344 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 323097007345 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 323097007346 putative MPT binding site; other site 323097007347 Usg-like family; Region: Usg; cl11567 323097007348 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 323097007349 oligomerisation interface [polypeptide binding]; other site 323097007350 mobile loop; other site 323097007351 roof hairpin; other site 323097007352 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 323097007353 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 323097007354 ring oligomerisation interface [polypeptide binding]; other site 323097007355 ATP/Mg binding site [chemical binding]; other site 323097007356 stacking interactions; other site 323097007357 hinge regions; other site 323097007358 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_8; cd07246 323097007359 putative dimer interface [polypeptide binding]; other site 323097007360 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323097007361 Transposase domain (DUF772); Region: DUF772; cl15789 323097007362 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097007363 Transposase domain (DUF772); Region: DUF772; cl15789 323097007364 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 323097007365 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 323097007366 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 323097007367 Ligand binding site; other site 323097007368 Putative Catalytic site; other site 323097007369 DXD motif; other site 323097007370 GtrA-like protein; Region: GtrA; cl00971 323097007371 Protein of unknown function DUF72; Region: DUF72; cl00777 323097007372 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 323097007373 putative MPT binding site; other site 323097007374 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 323097007375 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 323097007376 Ligand binding site; other site 323097007377 metal-binding site 323097007378 XdhC Rossmann domain; Region: XdhC_C; pfam13478 323097007379 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 323097007380 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 323097007381 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 323097007382 metal ion-dependent adhesion site (MIDAS); other site 323097007383 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 323097007384 Walker A motif; other site 323097007385 ATP binding site [chemical binding]; other site 323097007386 Walker B motif; other site 323097007387 arginine finger; other site 323097007388 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 323097007389 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 323097007390 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 323097007391 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; cl00159 323097007392 catalytic loop [active] 323097007393 iron binding site [ion binding]; other site 323097007394 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 323097007395 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 323097007396 putative hydrophobic ligand binding site [chemical binding]; other site 323097007397 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 323097007398 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 323097007399 TM-ABC transporter signature motif; other site 323097007400 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 323097007401 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 323097007402 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 323097007403 TM-ABC transporter signature motif; other site 323097007404 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 323097007405 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 323097007406 Walker A/P-loop; other site 323097007407 ATP binding site [chemical binding]; other site 323097007408 Q-loop/lid; other site 323097007409 ABC transporter signature motif; other site 323097007410 Walker B; other site 323097007411 D-loop; other site 323097007412 H-loop/switch region; other site 323097007413 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 323097007414 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 323097007415 Walker A/P-loop; other site 323097007416 ATP binding site [chemical binding]; other site 323097007417 Q-loop/lid; other site 323097007418 ABC transporter signature motif; other site 323097007419 Walker B; other site 323097007420 D-loop; other site 323097007421 H-loop/switch region; other site 323097007422 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 323097007423 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 323097007424 dimerization interface [polypeptide binding]; other site 323097007425 ligand binding site [chemical binding]; other site 323097007426 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 323097007427 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 323097007428 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 323097007429 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 323097007430 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 323097007431 substrate binding site [chemical binding]; other site 323097007432 hexamer interface [polypeptide binding]; other site 323097007433 metal binding site [ion binding]; metal-binding site 323097007434 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 323097007435 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 323097007436 N-terminal plug; other site 323097007437 ligand-binding site [chemical binding]; other site 323097007438 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 323097007439 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 323097007440 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 323097007441 putative active site [active] 323097007442 heme pocket [chemical binding]; other site 323097007443 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 323097007444 dimer interface [polypeptide binding]; other site 323097007445 phosphorylation site [posttranslational modification] 323097007446 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 323097007447 ATP binding site [chemical binding]; other site 323097007448 Mg2+ binding site [ion binding]; other site 323097007449 G-X-G motif; other site 323097007450 Fe-S metabolism associated domain; Region: SufE; cl00951 323097007451 Predicted transcriptional regulator [Transcription]; Region: COG4957 323097007452 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 323097007453 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 323097007454 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 323097007455 metal binding site [ion binding]; metal-binding site 323097007456 putative dimer interface [polypeptide binding]; other site 323097007457 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 323097007458 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 323097007459 Domain of unknown function (DUF4332); Region: DUF4332; pfam14229 323097007460 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 323097007461 dihydropteroate synthase; Region: DHPS; TIGR01496 323097007462 substrate binding pocket [chemical binding]; other site 323097007463 dimer interface [polypeptide binding]; other site 323097007464 inhibitor binding site; inhibition site 323097007465 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 323097007466 homooctamer interface [polypeptide binding]; other site 323097007467 active site 323097007468 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 323097007469 catalytic center binding site [active] 323097007470 ATP binding site [chemical binding]; other site 323097007471 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 323097007472 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 323097007473 heterodimer interface [polypeptide binding]; other site 323097007474 substrate interaction site [chemical binding]; other site 323097007475 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 323097007476 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 323097007477 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 323097007478 active site 323097007479 substrate binding site [chemical binding]; other site 323097007480 coenzyme B12 binding site [chemical binding]; other site 323097007481 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 323097007482 B12 binding site [chemical binding]; other site 323097007483 cobalt ligand [ion binding]; other site 323097007484 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 323097007485 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 323097007486 membrane ATPase/protein kinase; Provisional; Region: PRK09435 323097007487 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 323097007488 Walker A; other site 323097007489 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097007490 G4 box; other site 323097007491 G5 box; other site 323097007492 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 323097007493 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097007494 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097007495 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 323097007496 putative substrate binding pocket [chemical binding]; other site 323097007497 AC domain interface; other site 323097007498 catalytic triad [active] 323097007499 AB domain interface; other site 323097007500 interchain disulfide; other site 323097007501 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 323097007502 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 323097007503 putative substrate translocation pore; other site 323097007504 twin-arg-translocated uncharacterized repeat protein; Region: RR_plus_rpt_1; TIGR03808 323097007505 putative cofactor-binding repeat; Region: RR_fam_repeat; TIGR03807 323097007506 putative cofactor-binding repeat; Region: RR_fam_repeat; TIGR03807 323097007507 High-affinity nickel-transport protein; Region: NicO; cl00964 323097007508 High-affinity nickel-transport protein; Region: NicO; cl00964 323097007509 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 323097007510 putative metal binding site [ion binding]; other site 323097007511 putative homotetramer interface [polypeptide binding]; other site 323097007512 putative homodimer interface [polypeptide binding]; other site 323097007513 putative homodimer-homodimer interface [polypeptide binding]; other site 323097007514 putative allosteric switch controlling residues; other site 323097007515 TIGR03809 family protein; Region: TIGR03809 323097007516 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 323097007517 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 323097007518 Peptidase S8 family domain, uncharacterized subfamily 4; Region: Peptidases_S8_4; cd05561 323097007519 active site 323097007520 catalytic triad [active] 323097007521 RNA polymerase sigma factor; Provisional; Region: PRK12515 323097007522 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323097007523 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 323097007524 DNA binding residues [nucleotide binding] 323097007525 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; cl15419 323097007526 enoyl-CoA hydratase; Provisional; Region: PRK05862 323097007527 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 323097007528 substrate binding site [chemical binding]; other site 323097007529 oxyanion hole (OAH) forming residues; other site 323097007530 trimer interface [polypeptide binding]; other site 323097007531 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 323097007532 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 323097007533 threonine dehydratase; Provisional; Region: PRK07334 323097007534 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 323097007535 tetramer interface [polypeptide binding]; other site 323097007536 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097007537 catalytic residue [active] 323097007538 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 323097007539 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 323097007540 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 323097007541 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 323097007542 generic binding surface II; other site 323097007543 generic binding surface I; other site 323097007544 DNA Polymerase Y-family; Region: PolY_like; cd03468 323097007545 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 323097007546 DNA binding site [nucleotide binding] 323097007547 Cell division inhibitor SulA; Region: SulA; cl01880 323097007548 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 323097007549 dimerization interface [polypeptide binding]; other site 323097007550 metal binding site [ion binding]; metal-binding site 323097007551 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 323097007552 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 323097007553 metal binding site [ion binding]; metal-binding site 323097007554 putative dimer interface [polypeptide binding]; other site 323097007555 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 323097007556 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 323097007557 active site 323097007558 metal binding site [ion binding]; metal-binding site 323097007559 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 323097007560 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 323097007561 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323097007562 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 323097007563 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 323097007564 Putative zinc-finger; Region: zf-HC2; cl15806 323097007565 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 323097007566 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 323097007567 inhibitor-cofactor binding pocket; inhibition site 323097007568 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097007569 catalytic residue [active] 323097007570 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 323097007571 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 323097007572 LytB protein; Region: LYTB; cl00507 323097007573 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 323097007574 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 323097007575 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 323097007576 FeS/SAM binding site; other site 323097007577 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 323097007578 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 323097007579 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 323097007580 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 323097007581 Active site cavity [active] 323097007582 catalytic acid [active] 323097007583 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097007584 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 323097007585 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 323097007586 catalytic residues [active] 323097007587 substrate binding pocket [chemical binding]; other site 323097007588 substrate-Mg2+ binding site; other site 323097007589 aspartate-rich region 1; other site 323097007590 aspartate-rich region 2; other site 323097007591 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 323097007592 active site lid residues [active] 323097007593 substrate binding pocket [chemical binding]; other site 323097007594 catalytic residues [active] 323097007595 substrate-Mg2+ binding site; other site 323097007596 aspartate-rich region 1; other site 323097007597 aspartate-rich region 2; other site 323097007598 Cysteine rich repeat; Region: Cys_rich_FGFR; pfam00839 323097007599 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 323097007600 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 323097007601 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 323097007602 B12 binding site [chemical binding]; other site 323097007603 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 323097007604 amidase; Provisional; Region: PRK07056 323097007605 Amidase; Region: Amidase; cl11426 323097007606 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 323097007607 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 323097007608 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 323097007609 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 323097007610 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 323097007611 OsmC-like protein; Region: OsmC; cl00767 323097007612 transcriptional regulator BetI; Validated; Region: PRK00767 323097007613 Helix-turn-helix domains; Region: HTH; cl00088 323097007614 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 323097007615 Predicted transporter component [General function prediction only]; Region: COG2391 323097007616 Sulphur transport; Region: Sulf_transp; cl01018 323097007617 FAD dependent oxidoreductase; Region: DAO; pfam01266 323097007618 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097007619 multidrug efflux protein; Reviewed; Region: PRK09579 323097007620 Protein export membrane protein; Region: SecD_SecF; cl14618 323097007621 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323097007622 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097007623 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097007624 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 323097007625 Helix-turn-helix domains; Region: HTH; cl00088 323097007626 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 323097007627 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 323097007628 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 323097007629 NAD(P) binding site [chemical binding]; other site 323097007630 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 323097007631 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323097007632 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 323097007633 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 323097007634 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; cl09155 323097007635 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 323097007636 putative active site [active] 323097007637 putative catalytic site [active] 323097007638 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 323097007639 Cu(I) binding site [ion binding]; other site 323097007640 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 323097007641 Putative water exit pathway; other site 323097007642 Binuclear center (active site) [active] 323097007643 K-pathway; other site 323097007644 Putative proton exit pathway; other site 323097007645 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 323097007646 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 323097007647 2-isopropylmalate synthase; Validated; Region: PRK00915 323097007648 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 323097007649 active site 323097007650 catalytic residues [active] 323097007651 metal binding site [ion binding]; metal-binding site 323097007652 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 323097007653 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 323097007654 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097007655 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 323097007656 Walker A/P-loop; other site 323097007657 ATP binding site [chemical binding]; other site 323097007658 Q-loop/lid; other site 323097007659 ABC transporter signature motif; other site 323097007660 Walker B; other site 323097007661 D-loop; other site 323097007662 H-loop/switch region; other site 323097007663 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 323097007664 dimer interface [polypeptide binding]; other site 323097007665 conserved gate region; other site 323097007666 putative PBP binding loops; other site 323097007667 ABC-ATPase subunit interface; other site 323097007668 NMT1-like family; Region: NMT1_2; cl15260 323097007669 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 323097007670 ketol-acid reductoisomerase; Provisional; Region: PRK05479 323097007671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097007672 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 323097007673 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 323097007674 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 323097007675 putative valine binding site [chemical binding]; other site 323097007676 dimer interface [polypeptide binding]; other site 323097007677 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 323097007678 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 323097007679 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 323097007680 PYR/PP interface [polypeptide binding]; other site 323097007681 dimer interface [polypeptide binding]; other site 323097007682 TPP binding site [chemical binding]; other site 323097007683 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 323097007684 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 323097007685 TPP-binding site [chemical binding]; other site 323097007686 dimer interface [polypeptide binding]; other site 323097007687 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 323097007688 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097007689 phosphoserine phosphatase SerB; Region: serB; TIGR00338 323097007690 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 323097007691 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 323097007692 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 323097007693 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 323097007694 protein binding site [polypeptide binding]; other site 323097007695 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 323097007696 protein binding site [polypeptide binding]; other site 323097007697 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 323097007698 FtsH protease regulator HflC; Provisional; Region: PRK11029 323097007699 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 323097007700 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 323097007701 HflK protein; Region: hflK; TIGR01933 323097007702 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 323097007703 folate binding site [chemical binding]; other site 323097007704 NADP+ binding site [chemical binding]; other site 323097007705 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 323097007706 dimerization interface [polypeptide binding]; other site 323097007707 active site 323097007708 Stringent starvation protein B; Region: SspB; cl01120 323097007709 fumarate hydratase; Reviewed; Region: fumC; PRK00485 323097007710 Class II fumarases; Region: Fumarase_classII; cd01362 323097007711 active site 323097007712 tetramer interface [polypeptide binding]; other site 323097007713 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 323097007714 Ribbon-helix-helix domain; Region: RHH_4; cl01775 323097007715 Ribbon-helix-helix domain; Region: RHH_4; cl01775 323097007716 AsmA family; Region: AsmA; pfam05170 323097007717 AsmA-like C-terminal region; Region: AsmA_2; cl15864 323097007718 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 323097007719 active site 323097007720 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 323097007721 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097007722 Family description; Region: UvrD_C_2; cl15862 323097007723 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 323097007724 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097007725 Walker A/P-loop; other site 323097007726 ATP binding site [chemical binding]; other site 323097007727 Q-loop/lid; other site 323097007728 ABC transporter signature motif; other site 323097007729 Walker B; other site 323097007730 D-loop; other site 323097007731 H-loop/switch region; other site 323097007732 ABC-2 type transporter; Region: ABC2_membrane; cl11417 323097007733 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 323097007734 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 323097007735 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097007736 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 323097007737 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 323097007738 S-adenosylmethionine binding site [chemical binding]; other site 323097007739 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 323097007740 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 323097007741 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 323097007742 active site 323097007743 Transposase domain (DUF772); Region: DUF772; cl15789 323097007744 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097007745 Transposase domain (DUF772); Region: DUF772; cl15789 323097007746 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 323097007747 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 protein; Region: CSP_CDS; cd04458 323097007748 DNA-binding site [nucleotide binding]; DNA binding site 323097007749 RNA-binding motif; other site 323097007750 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 323097007751 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 323097007752 oligomerization interface [polypeptide binding]; other site 323097007753 active site 323097007754 NAD+ binding site [chemical binding]; other site 323097007755 S-adenosylmethionine synthetase; Validated; Region: PRK05250 323097007756 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 323097007757 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 323097007758 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 323097007759 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 323097007760 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097007761 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 323097007762 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097007763 Transposase domain (DUF772); Region: DUF772; cl15789 323097007764 Transposase domain (DUF772); Region: DUF772; cl15789 323097007765 Transposase domain (DUF772); Region: DUF772; cl15789 323097007766 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 323097007767 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097007768 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 323097007769 active site 323097007770 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 323097007771 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323097007772 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 323097007773 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323097007774 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 323097007775 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 323097007776 substrate binding site; other site 323097007777 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097007778 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 323097007779 NAD(P) binding site [chemical binding]; other site 323097007780 active site 323097007781 Cupin domain; Region: Cupin_2; cl09118 323097007782 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 323097007783 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097007784 Methyltransferase domain; Region: Methyltransf_31; pfam13847 323097007785 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 323097007786 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097007787 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 323097007788 NAD(P) binding site [chemical binding]; other site 323097007789 active site 323097007790 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 323097007791 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323097007792 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 323097007793 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097007794 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323097007795 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097007796 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 323097007797 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323097007798 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 323097007799 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323097007800 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_4; cd03795 323097007801 putative ADP-binding pocket [chemical binding]; other site 323097007802 ABC-2 type transporter; Region: ABC2_membrane; cl11417 323097007803 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 323097007804 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 323097007805 Walker A/P-loop; other site 323097007806 ATP binding site [chemical binding]; other site 323097007807 Q-loop/lid; other site 323097007808 ABC transporter signature motif; other site 323097007809 Walker B; other site 323097007810 D-loop; other site 323097007811 H-loop/switch region; other site 323097007812 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 323097007813 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 323097007814 NADP-binding site; other site 323097007815 homotetramer interface [polypeptide binding]; other site 323097007816 substrate binding site [chemical binding]; other site 323097007817 homodimer interface [polypeptide binding]; other site 323097007818 active site 323097007819 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 323097007820 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097007821 NAD(P) binding site [chemical binding]; other site 323097007822 active site 323097007823 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 323097007824 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 323097007825 Substrate binding site; other site 323097007826 Cupin domain; Region: Cupin_2; cl09118 323097007827 Transposase, Mutator family; Region: Transposase_mut; pfam00872 323097007828 MULE transposase domain; Region: MULE; pfam10551 323097007829 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 323097007830 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097007831 Winged helix-turn helix; Region: HTH_29; pfam13551 323097007832 Helix-turn-helix domains; Region: HTH; cl00088 323097007833 Helix-turn-helix domains; Region: HTH; cl00088 323097007834 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 323097007835 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 323097007836 catalytic residues [active] 323097007837 catalytic nucleophile [active] 323097007838 Recombinase; Region: Recombinase; pfam07508 323097007839 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 323097007840 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 323097007841 DNA-binding interface [nucleotide binding]; DNA binding site 323097007842 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 323097007843 Integrase core domain; Region: rve; cl01316 323097007844 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 323097007845 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 323097007846 Integrase core domain; Region: rve; cl01316 323097007847 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 323097007848 Transposase, Mutator family; Region: Transposase_mut; pfam00872 323097007849 MULE transposase domain; Region: MULE; pfam10551 323097007850 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 323097007851 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 323097007852 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097007853 NAD(P) binding site [chemical binding]; other site 323097007854 active site 323097007855 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097007856 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 323097007857 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 323097007858 NAD(P) binding site [chemical binding]; other site 323097007859 homodimer interface [polypeptide binding]; other site 323097007860 substrate binding site [chemical binding]; other site 323097007861 active site 323097007862 O-Antigen ligase; Region: Wzy_C; cl04850 323097007863 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 323097007864 Mg++ binding site [ion binding]; other site 323097007865 putative catalytic motif [active] 323097007866 putative substrate binding site [chemical binding]; other site 323097007867 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 323097007868 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 323097007869 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 323097007870 homodimer interface [polypeptide binding]; other site 323097007871 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097007872 catalytic residue [active] 323097007873 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 323097007874 HIT family signature motif; other site 323097007875 catalytic residue [active] 323097007876 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 323097007877 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 323097007878 Walker A/P-loop; other site 323097007879 ATP binding site [chemical binding]; other site 323097007880 Q-loop/lid; other site 323097007881 ABC transporter signature motif; other site 323097007882 Walker B; other site 323097007883 D-loop; other site 323097007884 H-loop/switch region; other site 323097007885 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 323097007886 TM-ABC transporter signature motif; other site 323097007887 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 323097007888 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 323097007889 Walker A/P-loop; other site 323097007890 ATP binding site [chemical binding]; other site 323097007891 Q-loop/lid; other site 323097007892 ABC transporter signature motif; other site 323097007893 Walker B; other site 323097007894 D-loop; other site 323097007895 H-loop/switch region; other site 323097007896 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 323097007897 TM-ABC transporter signature motif; other site 323097007898 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 323097007899 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 323097007900 putative ligand binding site [chemical binding]; other site 323097007901 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 323097007902 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 323097007903 ligand binding site [chemical binding]; other site 323097007904 flexible hinge region; other site 323097007905 Helix-turn-helix domains; Region: HTH; cl00088 323097007906 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 323097007907 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 323097007908 inhibitor-cofactor binding pocket; inhibition site 323097007909 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097007910 catalytic residue [active] 323097007911 AAA domain; Region: AAA_26; pfam13500 323097007912 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097007913 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 323097007914 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 323097007915 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 323097007916 catalytic residue [active] 323097007917 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 323097007918 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 323097007919 Quinolinate synthetase A protein; Region: NadA; cl00420 323097007920 L-aspartate oxidase; Provisional; Region: PRK07512 323097007921 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097007922 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 323097007923 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 323097007924 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 323097007925 dimerization interface [polypeptide binding]; other site 323097007926 active site 323097007927 Helix-turn-helix domains; Region: HTH; cl00088 323097007928 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 323097007929 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 323097007930 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 323097007931 Domain of unknown function (DUF4424); Region: DUF4424; pfam14415 323097007932 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 323097007933 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097007934 AAA domain; Region: AAA_27; pfam13514 323097007935 Walker A/P-loop; other site 323097007936 ATP binding site [chemical binding]; other site 323097007937 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 323097007938 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 323097007939 active site 323097007940 metal binding site [ion binding]; metal-binding site 323097007941 DNA binding site [nucleotide binding] 323097007942 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 323097007943 Fic/DOC family; Region: Fic; cl00960 323097007944 Helix-turn-helix domains; Region: HTH; cl00088 323097007945 Winged helix-turn helix; Region: HTH_29; pfam13551 323097007946 Helix-turn-helix domains; Region: HTH; cl00088 323097007947 Integrase core domain; Region: rve; cl01316 323097007948 Helix-turn-helix domains; Region: HTH; cl00088 323097007949 Helix-turn-helix domains; Region: HTH; cl00088 323097007950 SWIM zinc finger; Region: SWIM; cl15408 323097007951 SNF2 Helicase protein; Region: DUF3670; pfam12419 323097007952 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 323097007953 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 323097007954 ATP binding site [chemical binding]; other site 323097007955 putative Mg++ binding site [ion binding]; other site 323097007956 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 323097007957 nucleotide binding region [chemical binding]; other site 323097007958 ATP-binding site [chemical binding]; other site 323097007959 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 323097007960 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097007961 Family description; Region: UvrD_C_2; cl15862 323097007962 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 protein; Region: CSP_CDS; cd04458 323097007963 DNA-binding site [nucleotide binding]; DNA binding site 323097007964 RNA-binding motif; other site 323097007965 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 323097007966 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 323097007967 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 323097007968 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 323097007969 RNA/DNA hybrid binding site [nucleotide binding]; other site 323097007970 active site 323097007971 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 323097007972 Int/Topo IB signature motif; other site 323097007973 active site 323097007974 catalytic residues [active] 323097007975 DNA binding site [nucleotide binding] 323097007976 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 323097007977 active site 323097007978 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 323097007979 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 323097007980 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323097007981 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 323097007982 DNA binding residues [nucleotide binding] 323097007983 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323097007984 metal binding site [ion binding]; metal-binding site 323097007985 active site 323097007986 I-site; other site 323097007987 lytic murein transglycosylase; Region: MltB_2; TIGR02283 323097007988 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 323097007989 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 323097007990 putative substrate translocation pore; other site 323097007991 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 323097007992 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 323097007993 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 323097007994 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 323097007995 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 323097007996 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323097007997 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 323097007998 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 323097007999 DNA binding residues [nucleotide binding] 323097008000 DNA primase, catalytic core; Region: dnaG; TIGR01391 323097008001 CHC2 zinc finger; Region: zf-CHC2; cl15369 323097008002 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 323097008003 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 323097008004 active site 323097008005 metal binding site [ion binding]; metal-binding site 323097008006 interdomain interaction site; other site 323097008007 N-formylglutamate amidohydrolase; Region: FGase; cl01522 323097008008 GatB domain; Region: GatB_Yqey; cl11497 323097008009 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 323097008010 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 323097008011 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 323097008012 catalytic site [active] 323097008013 subunit interface [polypeptide binding]; other site 323097008014 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 323097008015 Ferritin-like domain; Region: Ferritin; pfam00210 323097008016 dimerization interface [polypeptide binding]; other site 323097008017 DPS ferroxidase diiron center [ion binding]; other site 323097008018 ion pore; other site 323097008019 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 323097008020 S-adenosylmethionine binding site [chemical binding]; other site 323097008021 Domain of unknown function DUF302; Region: DUF302; cl01364 323097008022 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 323097008023 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 323097008024 ATP-grasp domain; Region: ATP-grasp_4; cl03087 323097008025 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 323097008026 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 323097008027 ATP-grasp domain; Region: ATP-grasp_4; cl03087 323097008028 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 323097008029 IMP binding site; other site 323097008030 dimer interface [polypeptide binding]; other site 323097008031 interdomain contacts; other site 323097008032 partial ornithine binding site; other site 323097008033 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 323097008034 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 323097008035 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 323097008036 DoxX; Region: DoxX; cl00976 323097008037 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 323097008038 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 323097008039 putative DNA binding site [nucleotide binding]; other site 323097008040 putative Zn2+ binding site [ion binding]; other site 323097008041 Helix-turn-helix domains; Region: HTH; cl00088 323097008042 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 323097008043 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323097008044 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323097008045 Helix-turn-helix domains; Region: HTH; cl00088 323097008046 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 323097008047 putative effector binding pocket; other site 323097008048 dimerization interface [polypeptide binding]; other site 323097008049 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 323097008050 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 323097008051 P-loop; other site 323097008052 Magnesium ion binding site [ion binding]; other site 323097008053 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3921 323097008054 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 323097008055 Domain of unknown function (DUF4403); Region: DUF4403; pfam14356 323097008056 Dodecin; Region: Dodecin; cl01328 323097008057 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 323097008058 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 catalyze...; Region: LT_GEWL; cd00254 323097008059 N-acetyl-D-glucosamine binding site [chemical binding]; other site 323097008060 catalytic residue [active] 323097008061 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 323097008062 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 323097008063 thiS-thiF/thiG interaction site; other site 323097008064 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 323097008065 ThiS interaction site; other site 323097008066 putative active site [active] 323097008067 tetramer interface [polypeptide binding]; other site 323097008068 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 323097008069 active site 323097008070 thiamine phosphate binding site [chemical binding]; other site 323097008071 pyrophosphate binding site [ion binding]; other site 323097008072 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 323097008073 ThiC-associated domain; Region: ThiC-associated; pfam13667 323097008074 ThiC family; Region: ThiC; cl08031 323097008075 Putative small multi-drug export protein; Region: Sm_multidrug_ex; cl01024 323097008076 Sulphur transport; Region: Sulf_transp; cl01018 323097008077 Helix-turn-helix domains; Region: HTH; cl00088 323097008078 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 323097008079 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 323097008080 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 323097008081 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 323097008082 heme binding site [chemical binding]; other site 323097008083 ferroxidase pore; other site 323097008084 ferroxidase diiron center [ion binding]; other site 323097008085 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 323097008086 lytic murein transglycosylase; Region: MltB_2; TIGR02283 323097008087 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 323097008088 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 323097008089 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 323097008090 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 323097008091 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 323097008092 S-adenosylmethionine binding site [chemical binding]; other site 323097008093 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 323097008094 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 323097008095 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 323097008096 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 323097008097 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 323097008098 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 323097008099 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 323097008100 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 323097008101 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 323097008102 active site residue [active] 323097008103 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 323097008104 active site residue [active] 323097008105 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 323097008106 active site 323097008107 catalytic residue [active] 323097008108 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 323097008109 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 323097008110 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 323097008111 PAS fold; Region: PAS_7; pfam12860 323097008112 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 323097008113 excinuclease ABC subunit B; Provisional; Region: PRK05298 323097008114 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 323097008115 ATP binding site [chemical binding]; other site 323097008116 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 323097008117 nucleotide binding region [chemical binding]; other site 323097008118 ATP-binding site [chemical binding]; other site 323097008119 Ultra-violet resistance protein B; Region: UvrB; pfam12344 323097008120 UvrB/uvrC motif; Region: UVR; pfam02151 323097008121 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 323097008122 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097008123 Transposase domain (DUF772); Region: DUF772; cl15789 323097008124 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 323097008125 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 323097008126 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323097008127 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097008128 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097008129 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 323097008130 substrate binding site [chemical binding]; other site 323097008131 active site 323097008132 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 323097008133 CPxP motif; other site 323097008134 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 323097008135 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323097008136 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_8; cd07246 323097008137 putative dimer interface [polypeptide binding]; other site 323097008138 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 323097008139 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 323097008140 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 323097008141 DNA binding residues [nucleotide binding] 323097008142 dimerization interface [polypeptide binding]; other site 323097008143 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 323097008144 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 323097008145 Walker A/P-loop; other site 323097008146 ATP binding site [chemical binding]; other site 323097008147 Q-loop/lid; other site 323097008148 ABC transporter signature motif; other site 323097008149 Walker B; other site 323097008150 D-loop; other site 323097008151 H-loop/switch region; other site 323097008152 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 323097008153 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097008154 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097008155 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 323097008156 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 323097008157 Helix-turn-helix domains; Region: HTH; cl00088 323097008158 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 323097008159 Helix-turn-helix domains; Region: HTH; cl00088 323097008160 TOBE domain; Region: TOBE_2; cl01440 323097008161 TOBE domain; Region: TOBE_2; cl01440 323097008162 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 323097008163 nucleotide binding site [chemical binding]; other site 323097008164 substrate binding site [chemical binding]; other site 323097008165 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097008166 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097008167 AAK_UMPK-MosAB: This CD includes the alpha and beta subunits of the Mo storage protein (MosA and MosB) which are related to uridine monophosphate kinase (UMPK) enzymes that catalyze the phosphorylation of UMP by ATP, yielding UDP, and playing a key role...; Region: AAK_UMPK-MosAB; cd04255 323097008168 putative nucleotide binding site [chemical binding]; other site 323097008169 putative substrate binding site [chemical binding]; other site 323097008170 Porin subfamily; Region: Porin_2; pfam02530 323097008171 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 323097008172 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 323097008173 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; cl01467 323097008174 DJ-1 family protein; Region: not_thiJ; TIGR01383 323097008175 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 323097008176 conserved cys residue [active] 323097008177 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 323097008178 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 323097008179 [4Fe-4S] binding site [ion binding]; other site 323097008180 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 323097008181 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 323097008182 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 323097008183 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 323097008184 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 323097008185 molybdopterin cofactor binding site; other site 323097008186 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 323097008187 active site 323097008188 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 323097008189 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 323097008190 [2Fe-2S] cluster binding site [ion binding]; other site 323097008191 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 323097008192 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 323097008193 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 323097008194 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 323097008195 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 323097008196 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097008197 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 323097008198 metal binding site 2 [ion binding]; metal-binding site 323097008199 putative DNA binding helix; other site 323097008200 metal binding site 1 [ion binding]; metal-binding site 323097008201 dimer interface [polypeptide binding]; other site 323097008202 structural Zn2+ binding site [ion binding]; other site 323097008203 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 323097008204 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 323097008205 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 323097008206 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 323097008207 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 323097008208 ABC transporter; Region: ABC_tran_2; pfam12848 323097008209 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 323097008210 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 323097008211 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 323097008212 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 323097008213 Sulfatase; Region: Sulfatase; cl10460 323097008214 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097008215 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 323097008216 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097008217 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 323097008218 Uncharacterized conserved protein [Function unknown]; Region: COG5361 323097008219 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 323097008220 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 323097008221 Uncharacterized conserved protein [Function unknown]; Region: COG5361 323097008222 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 323097008223 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 323097008224 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 323097008225 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 323097008226 motif II; other site 323097008227 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 323097008228 transcriptional regulator EutR; Provisional; Region: PRK10130 323097008229 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 323097008230 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 323097008231 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097008232 active site 323097008233 phosphorylation site [posttranslational modification] 323097008234 intermolecular recognition site; other site 323097008235 dimerization interface [polypeptide binding]; other site 323097008236 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 323097008237 DNA binding site [nucleotide binding] 323097008238 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 323097008239 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 323097008240 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 323097008241 Ligand Binding Site [chemical binding]; other site 323097008242 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 323097008243 GAF domain; Region: GAF; cl15785 323097008244 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 323097008245 dimer interface [polypeptide binding]; other site 323097008246 phosphorylation site [posttranslational modification] 323097008247 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 323097008248 ATP binding site [chemical binding]; other site 323097008249 Mg2+ binding site [ion binding]; other site 323097008250 G-X-G motif; other site 323097008251 K+-transporting ATPase, c chain; Region: KdpC; cl00944 323097008252 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 323097008253 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 323097008254 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 323097008255 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 323097008256 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 323097008257 Helix-turn-helix domains; Region: HTH; cl00088 323097008258 Transposase domain (DUF772); Region: DUF772; cl15789 323097008259 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097008260 Transposase domain (DUF772); Region: DUF772; cl15789 323097008261 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 323097008262 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 323097008263 active site 323097008264 phosphorylation site [posttranslational modification] 323097008265 dimerization interface [polypeptide binding]; other site 323097008266 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 323097008267 DNA binding residues [nucleotide binding] 323097008268 dimerization interface [polypeptide binding]; other site 323097008269 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323097008270 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097008271 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097008272 Helix-turn-helix domains; Region: HTH; cl00088 323097008273 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 323097008274 active site 323097008275 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097008276 Helix-turn-helix domains; Region: HTH; cl00088 323097008277 Winged helix-turn helix; Region: HTH_29; pfam13551 323097008278 Helix-turn-helix domains; Region: HTH; cl00088 323097008279 Transposase, Mutator family; Region: Transposase_mut; pfam00872 323097008280 MULE transposase domain; Region: MULE; pfam10551 323097008281 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 323097008282 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 323097008283 NAD binding site [chemical binding]; other site 323097008284 homodimer interface [polypeptide binding]; other site 323097008285 active site 323097008286 substrate binding site [chemical binding]; other site 323097008287 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 323097008288 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 323097008289 active site 323097008290 metal binding site [ion binding]; metal-binding site 323097008291 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 323097008292 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097008293 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097008294 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 323097008295 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 323097008296 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097008297 Walker A/P-loop; other site 323097008298 ATP binding site [chemical binding]; other site 323097008299 Q-loop/lid; other site 323097008300 ABC transporter signature motif; other site 323097008301 Walker B; other site 323097008302 D-loop; other site 323097008303 H-loop/switch region; other site 323097008304 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 323097008305 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 323097008306 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 323097008307 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 323097008308 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 323097008309 Right handed beta helix region; Region: Beta_helix; pfam13229 323097008310 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 323097008311 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097008312 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097008313 OpgC protein; Region: OpgC_C; cl00792 323097008314 Acyltransferase family; Region: Acyl_transf_3; pfam01757 323097008315 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 323097008316 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 323097008317 Probable Catalytic site; other site 323097008318 metal-binding site 323097008319 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097008320 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 323097008321 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 323097008322 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 323097008323 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 323097008324 inhibitor-cofactor binding pocket; inhibition site 323097008325 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097008326 catalytic residue [active] 323097008327 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 323097008328 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097008329 NAD(P) binding site [chemical binding]; other site 323097008330 active site 323097008331 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 323097008332 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 323097008333 inhibitor-cofactor binding pocket; inhibition site 323097008334 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097008335 catalytic residue [active] 323097008336 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 323097008337 putative trimer interface [polypeptide binding]; other site 323097008338 putative active site [active] 323097008339 putative substrate binding site [chemical binding]; other site 323097008340 putative CoA binding site [chemical binding]; other site 323097008341 MatE; Region: MatE; cl10513 323097008342 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 323097008343 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 323097008344 trimer interface [polypeptide binding]; other site 323097008345 active site 323097008346 substrate binding site [chemical binding]; other site 323097008347 CoA binding site [chemical binding]; other site 323097008348 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097008349 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 323097008350 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 323097008351 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097008352 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 323097008353 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097008354 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 323097008355 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 323097008356 active site 323097008357 homodimer interface [polypeptide binding]; other site 323097008358 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 323097008359 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 323097008360 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 323097008361 active site 323097008362 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 323097008363 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097008364 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 323097008365 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). The cleavage...; Region: Peptidase_C39_like; cl00296 323097008366 putative active site [active] 323097008367 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 323097008368 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097008369 Walker A/P-loop; other site 323097008370 ATP binding site [chemical binding]; other site 323097008371 Q-loop/lid; other site 323097008372 ABC transporter signature motif; other site 323097008373 Walker B; other site 323097008374 D-loop; other site 323097008375 H-loop/switch region; other site 323097008376 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 323097008377 S-adenosylmethionine binding site [chemical binding]; other site 323097008378 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 323097008379 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 323097008380 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 323097008381 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 323097008382 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 323097008383 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 323097008384 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 323097008385 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 323097008386 substrate binding site; other site 323097008387 tetramer interface; other site 323097008388 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 323097008389 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 323097008390 NADP binding site [chemical binding]; other site 323097008391 active site 323097008392 putative substrate binding site [chemical binding]; other site 323097008393 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 323097008394 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 323097008395 NAD binding site [chemical binding]; other site 323097008396 substrate binding site [chemical binding]; other site 323097008397 homodimer interface [polypeptide binding]; other site 323097008398 active site 323097008399 Cupin domain; Region: Cupin_2; cl09118 323097008400 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 323097008401 Chain length determinant protein; Region: Wzz; cl15801 323097008402 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 323097008403 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 323097008404 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097008405 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097008406 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097008407 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323097008408 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097008409 Integrase core domain; Region: rve; cl01316 323097008410 Helix-turn-helix domains; Region: HTH; cl00088 323097008411 Winged helix-turn helix; Region: HTH_29; pfam13551 323097008412 Helix-turn-helix domains; Region: HTH; cl00088 323097008413 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 323097008414 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097008415 Bacterial sugar transferase; Region: Bac_transf; cl00939 323097008416 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097008417 H-NS histone family; Region: Histone_HNS; pfam00816 323097008418 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 323097008419 H-NS histone family; Region: Histone_HNS; pfam00816 323097008420 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 323097008421 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 323097008422 Transposase domain (DUF772); Region: DUF772; cl15789 323097008423 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097008424 Transposase domain (DUF772); Region: DUF772; cl15789 323097008425 DDE superfamily endonuclease; Region: DDE_5; cl02413 323097008426 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 323097008427 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323097008428 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097008429 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097008430 Helix-turn-helix domains; Region: HTH; cl00088 323097008431 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097008432 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097008433 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323097008434 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097008435 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097008436 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 323097008437 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 323097008438 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 323097008439 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 323097008440 DNA binding site [nucleotide binding] 323097008441 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 323097008442 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 323097008443 binding surface 323097008444 TPR motif; other site 323097008445 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 323097008446 Catalytic site; other site 323097008447 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 323097008448 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 323097008449 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323097008450 active site 323097008451 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 323097008452 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 323097008453 Uncharacterized conserved protein [Function unknown]; Region: COG1565 323097008454 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 323097008455 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 323097008456 Membrane fusogenic activity; Region: BMFP; cl01115 323097008457 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 323097008458 putative active site [active] 323097008459 putative catalytic site [active] 323097008460 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 323097008461 putative active site [active] 323097008462 putative catalytic site [active] 323097008463 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 323097008464 GTP-binding protein YchF; Reviewed; Region: PRK09601 323097008465 YchF GTPase; Region: YchF; cd01900 323097008466 G1 box; other site 323097008467 GTP/Mg2+ binding site [chemical binding]; other site 323097008468 Switch I region; other site 323097008469 G2 box; other site 323097008470 Switch II region; other site 323097008471 G3 box; other site 323097008472 G4 box; other site 323097008473 G5 box; other site 323097008474 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 323097008475 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 323097008476 putative active site [active] 323097008477 catalytic residue [active] 323097008478 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 323097008479 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 323097008480 5S rRNA interface [nucleotide binding]; other site 323097008481 CTC domain interface [polypeptide binding]; other site 323097008482 L16 interface [polypeptide binding]; other site 323097008483 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 323097008484 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 323097008485 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097008486 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 323097008487 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 323097008488 E3 interaction surface; other site 323097008489 lipoyl attachment site [posttranslational modification]; other site 323097008490 e3 binding domain; Region: E3_binding; pfam02817 323097008491 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 323097008492 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 323097008493 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 323097008494 alpha subunit interface [polypeptide binding]; other site 323097008495 TPP binding site [chemical binding]; other site 323097008496 heterodimer interface [polypeptide binding]; other site 323097008497 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 323097008498 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 323097008499 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 323097008500 TPP-binding site [chemical binding]; other site 323097008501 tetramer interface [polypeptide binding]; other site 323097008502 heterodimer interface [polypeptide binding]; other site 323097008503 phosphorylation loop region [posttranslational modification] 323097008504 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 323097008505 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 323097008506 tetrameric interface [polypeptide binding]; other site 323097008507 NAD binding site [chemical binding]; other site 323097008508 catalytic residues [active] 323097008509 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 323097008510 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 323097008511 inhibitor-cofactor binding pocket; inhibition site 323097008512 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097008513 catalytic residue [active] 323097008514 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 323097008515 putative deacylase active site [active] 323097008516 Transposase domain (DUF772); Region: DUF772; cl15789 323097008517 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097008518 Transposase domain (DUF772); Region: DUF772; cl15789 323097008519 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 323097008520 Ligand Binding Site [chemical binding]; other site 323097008521 Protein of unknown function (DUF982); Region: DUF982; pfam06169 323097008522 PcfJ-like protein; Region: PcfJ; pfam14284 323097008523 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 323097008524 4Fe-4S binding domain; Region: Fer4; cl02805 323097008525 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 323097008526 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 323097008527 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 323097008528 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 323097008529 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 323097008530 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 323097008531 [4Fe-4S] binding site [ion binding]; other site 323097008532 molybdopterin cofactor binding site; other site 323097008533 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 323097008534 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 323097008535 molybdopterin cofactor binding site; other site 323097008536 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 323097008537 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 323097008538 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 323097008539 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 323097008540 CPxP motif; other site 323097008541 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 323097008542 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 323097008543 dimer interface [polypeptide binding]; other site 323097008544 putative functional site; other site 323097008545 putative MPT binding site; other site 323097008546 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 323097008547 Walker A motif; other site 323097008548 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 323097008549 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 323097008550 GTP binding site; other site 323097008551 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 323097008552 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 323097008553 dimer interface [polypeptide binding]; other site 323097008554 putative functional site; other site 323097008555 putative MPT binding site; other site 323097008556 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 323097008557 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 323097008558 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 323097008559 dimer interface [polypeptide binding]; other site 323097008560 putative functional site; other site 323097008561 putative MPT binding site; other site 323097008562 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 323097008563 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 323097008564 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 323097008565 ATP binding site [chemical binding]; other site 323097008566 Mg2+ binding site [ion binding]; other site 323097008567 G-X-G motif; other site 323097008568 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097008569 active site 323097008570 phosphorylation site [posttranslational modification] 323097008571 intermolecular recognition site; other site 323097008572 dimerization interface [polypeptide binding]; other site 323097008573 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 323097008574 DNA binding site [nucleotide binding] 323097008575 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 323097008576 Helix-turn-helix domains; Region: HTH; cl00088 323097008577 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 323097008578 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 323097008579 homodimer interface [polypeptide binding]; other site 323097008580 substrate-cofactor binding pocket; other site 323097008581 catalytic residue [active] 323097008582 Transposase domain (DUF772); Region: DUF772; cl15789 323097008583 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097008584 Transposase domain (DUF772); Region: DUF772; cl15789 323097008585 multidrug efflux protein; Reviewed; Region: PRK01766 323097008586 MatE; Region: MatE; cl10513 323097008587 MatE; Region: MatE; cl10513 323097008588 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 323097008589 S-adenosylmethionine binding site [chemical binding]; other site 323097008590 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 323097008591 MoaE homodimer interface [polypeptide binding]; other site 323097008592 MoaD interaction [polypeptide binding]; other site 323097008593 active site residues [active] 323097008594 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 323097008595 MoaE interaction surface [polypeptide binding]; other site 323097008596 MoeB interaction surface [polypeptide binding]; other site 323097008597 thiocarboxylated glycine; other site 323097008598 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 323097008599 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 323097008600 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 323097008601 GIY-YIG motif/motif A; other site 323097008602 active site 323097008603 catalytic site [active] 323097008604 putative DNA binding site [nucleotide binding]; other site 323097008605 metal binding site [ion binding]; metal-binding site 323097008606 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 323097008607 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 323097008608 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 protein; Region: CSP_CDS; cd04458 323097008609 DNA-binding site [nucleotide binding]; DNA binding site 323097008610 RNA-binding motif; other site 323097008611 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 323097008612 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 323097008613 B1 nucleotide binding pocket [chemical binding]; other site 323097008614 B2 nucleotide binding pocket [chemical binding]; other site 323097008615 CAS motifs; other site 323097008616 active site 323097008617 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 323097008618 histidyl-tRNA synthetase; Region: hisS; TIGR00442 323097008619 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 ATP-dependent...; Region: HisRS-like_core; cd00773 323097008620 dimer interface [polypeptide binding]; other site 323097008621 motif 1; other site 323097008622 motif 2; other site 323097008623 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 attaches...; Region: class_II_aaRS-like_core; cl00268 323097008624 active site 323097008625 motif 3; other site 323097008626 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 323097008627 anticodon binding site; other site 323097008628 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 323097008629 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 323097008630 inhibitor-cofactor binding pocket; inhibition site 323097008631 pyridoxal 5'-phosphate binding site [chemical binding]; other site 323097008632 catalytic residue [active] 323097008633 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 323097008634 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 323097008635 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 323097008636 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 323097008637 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097008638 Response regulator receiver domain; Region: Response_reg; pfam00072 323097008639 active site 323097008640 phosphorylation site [posttranslational modification] 323097008641 intermolecular recognition site; other site 323097008642 dimerization interface [polypeptide binding]; other site 323097008643 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 323097008644 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 323097008645 active site 323097008646 Riboflavin kinase; Region: Flavokinase; cl03312 323097008647 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 323097008648 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 323097008649 active site 323097008650 HIGH motif; other site 323097008651 nucleotide binding site [chemical binding]; other site 323097008652 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 323097008653 active site 323097008654 KMSKS motif; other site 323097008655 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 323097008656 tRNA binding surface [nucleotide binding]; other site 323097008657 anticodon binding site; other site 323097008658 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 323097008659 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 323097008660 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 323097008661 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 323097008662 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 323097008663 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 323097008664 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 323097008665 RF-1 domain; Region: RF-1; cl02875 323097008666 Helix-turn-helix domains; Region: HTH; cl00088 323097008667 Winged helix-turn helix; Region: HTH_29; pfam13551 323097008668 Helix-turn-helix domains; Region: HTH; cl00088 323097008669 Integrase core domain; Region: rve; cl01316 323097008670 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 323097008671 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 323097008672 ATP binding site [chemical binding]; other site 323097008673 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 323097008674 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 323097008675 S-adenosylmethionine binding site [chemical binding]; other site 323097008676 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 323097008677 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 323097008678 RNA binding surface [nucleotide binding]; other site 323097008679 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 323097008680 active site 323097008681 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 323097008682 nucleoside/Zn binding site; other site 323097008683 dimer interface [polypeptide binding]; other site 323097008684 catalytic motif [active] 323097008685 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 323097008686 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 323097008687 ATP-grasp domain; Region: ATP-grasp_4; cl03087 323097008688 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 323097008689 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 323097008690 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 323097008691 generic binding surface II; other site 323097008692 generic binding surface I; other site 323097008693 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 323097008694 Uncharacterized protein conserved in bacteria (DUF2093); Region: DUF2093; cl11535 323097008695 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 323097008696 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 323097008697 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 323097008698 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 323097008699 putative acyl-acceptor binding pocket; other site 323097008700 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 323097008701 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 323097008702 active site 323097008703 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 323097008704 UbiA prenyltransferase family; Region: UbiA; cl00337 323097008705 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 323097008706 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 323097008707 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 323097008708 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 attaches...; Region: class_II_aaRS-like_core; cl00268 323097008709 motif 1; other site 323097008710 dimer interface [polypeptide binding]; other site 323097008711 active site 323097008712 motif 2; other site 323097008713 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 attaches...; Region: class_II_aaRS-like_core; cl00268 323097008714 active site 323097008715 motif 3; other site 323097008716 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 323097008717 ATP phosphoribosyltransferase; Region: HisG; cl15266 323097008718 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 323097008719 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 323097008720 Ligand binding site; other site 323097008721 Putative Catalytic site; other site 323097008722 DXD motif; other site 323097008723 YdjC-like protein; Region: YdjC; cl01344 323097008724 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; cl01353 323097008725 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 323097008726 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 323097008727 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 323097008728 oligomerisation interface [polypeptide binding]; other site 323097008729 mobile loop; other site 323097008730 roof hairpin; other site 323097008731 chaperonin GroEL; Reviewed; Region: groEL; PRK12852 323097008732 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 323097008733 ring oligomerisation interface [polypeptide binding]; other site 323097008734 ATP/Mg binding site [chemical binding]; other site 323097008735 stacking interactions; other site 323097008736 hinge regions; other site 323097008737 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 323097008738 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 323097008739 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 323097008740 Cysteine-rich domain; Region: CCG; pfam02754 323097008741 Cysteine-rich domain; Region: CCG; pfam02754 323097008742 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 323097008743 FAD binding domain; Region: FAD_binding_4; pfam01565 323097008744 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 323097008745 FAD binding domain; Region: FAD_binding_4; pfam01565 323097008746 Cytochrome c; Region: Cytochrom_C; cl11414 323097008747 Helix-turn-helix domains; Region: HTH; cl00088 323097008748 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 323097008749 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 323097008750 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 323097008751 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 323097008752 dimer interface [polypeptide binding]; other site 323097008753 motif 1; other site 323097008754 active site 323097008755 motif 2; other site 323097008756 motif 3; other site 323097008757 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 323097008758 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 323097008759 tandem repeat interface [polypeptide binding]; other site 323097008760 oligomer interface [polypeptide binding]; other site 323097008761 active site residues [active] 323097008762 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 323097008763 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097008764 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 323097008765 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 323097008766 substrate binding pocket [chemical binding]; other site 323097008767 chain length determination region; other site 323097008768 substrate-Mg2+ binding site; other site 323097008769 catalytic residues [active] 323097008770 aspartate-rich region 1; other site 323097008771 active site lid residues [active] 323097008772 aspartate-rich region 2; other site 323097008773 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 323097008774 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 323097008775 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 323097008776 binding surface 323097008777 TPR motif; other site 323097008778 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 323097008779 binding surface 323097008780 TPR motif; other site 323097008781 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 323097008782 binding surface 323097008783 TPR motif; other site 323097008784 TPR repeat; Region: TPR_11; pfam13414 323097008785 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 323097008786 binding surface 323097008787 TPR motif; other site 323097008788 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097008789 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 323097008790 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 323097008791 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 323097008792 Fe-S cluster binding site [ion binding]; other site 323097008793 active site 323097008794 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 323097008795 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 323097008796 RNA/DNA hybrid binding site [nucleotide binding]; other site 323097008797 active site 323097008798 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 323097008799 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 323097008800 FeS/SAM binding site; other site 323097008801 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 323097008802 MPT binding site; other site 323097008803 trimer interface [polypeptide binding]; other site 323097008804 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 323097008805 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 323097008806 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097008807 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 323097008808 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 323097008809 C-terminal domain interface [polypeptide binding]; other site 323097008810 GSH binding site (G-site) [chemical binding]; other site 323097008811 dimer interface [polypeptide binding]; other site 323097008812 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 323097008813 N-terminal domain interface [polypeptide binding]; other site 323097008814 dimer interface [polypeptide binding]; other site 323097008815 substrate binding pocket (H-site) [chemical binding]; other site 323097008816 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 323097008817 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 323097008818 minor groove reading motif; other site 323097008819 helix-hairpin-helix signature motif; other site 323097008820 active site 323097008821 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 323097008822 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 323097008823 DNA binding and oxoG recognition site [nucleotide binding] 323097008824 Protein of unknown function (DUF721); Region: DUF721; cl02324 323097008825 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 323097008826 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 323097008827 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 323097008828 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 323097008829 Walker A/P-loop; other site 323097008830 ATP binding site [chemical binding]; other site 323097008831 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 323097008832 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 323097008833 ABC transporter signature motif; other site 323097008834 Walker B; other site 323097008835 D-loop; other site 323097008836 H-loop/switch region; other site 323097008837 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097008838 Protein of unknown function (DUF454); Region: DUF454; cl01063 323097008839 LemA family; Region: LemA; cl00742 323097008840 Peptidase family M48; Region: Peptidase_M48; cl12018 323097008841 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 323097008842 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 323097008843 active site 323097008844 anthranilate synthase; Provisional; Region: PRK13566 323097008845 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 323097008846 chorismate binding enzyme; Region: Chorismate_bind; cl10555 323097008847 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 323097008848 glutamine binding [chemical binding]; other site 323097008849 catalytic triad [active] 323097008850 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 323097008851 substrate binding site [chemical binding]; other site 323097008852 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 323097008853 cytochrome b; Provisional; Region: CYTB; MTH00156 323097008854 Qi binding site; other site 323097008855 intrachain domain interface; other site 323097008856 interchain domain interface [polypeptide binding]; other site 323097008857 heme bH binding site [chemical binding]; other site 323097008858 heme bL binding site [chemical binding]; other site 323097008859 Qo binding site; other site 323097008860 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 323097008861 interchain domain interface [polypeptide binding]; other site 323097008862 intrachain domain interface; other site 323097008863 Qi binding site; other site 323097008864 Qo binding site; other site 323097008865 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 323097008866 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 323097008867 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 323097008868 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 323097008869 [2Fe-2S] cluster binding site [ion binding]; other site 323097008870 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 323097008871 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 323097008872 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 323097008873 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 323097008874 active site 323097008875 Tetratricopeptide repeat; Region: TPR_10; pfam13374 323097008876 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 323097008877 binding surface 323097008878 TPR motif; other site 323097008879 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323097008880 Tetratricopeptide repeat; Region: TPR_12; pfam13424 323097008881 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 323097008882 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 323097008883 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 323097008884 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 323097008885 active site 323097008886 NTP binding site [chemical binding]; other site 323097008887 metal binding triad [ion binding]; metal-binding site 323097008888 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 323097008889 putative active site [active] 323097008890 putative CoA binding site [chemical binding]; other site 323097008891 nudix motif; other site 323097008892 metal binding site [ion binding]; metal-binding site 323097008893 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 323097008894 MoxR-like ATPases [General function prediction only]; Region: COG0714 323097008895 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097008896 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 323097008897 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 323097008898 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 323097008899 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 323097008900 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 323097008901 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 323097008902 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; cl00284 323097008903 Predicted acetyltransferase [General function prediction only]; Region: COG3153 323097008904 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323097008905 Coenzyme A binding pocket [chemical binding]; other site 323097008906 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_21; cd04680 323097008907 nudix motif; other site 323097008908 Uncharacterized conserved protein [Function unknown]; Region: COG1633 323097008909 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 323097008910 diiron binding motif [ion binding]; other site 323097008911 CCC1-related family of proteins; Region: CCC1_like; cl00278 323097008912 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 323097008913 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 323097008914 active site 323097008915 metal binding site [ion binding]; metal-binding site 323097008916 Transposase domain (DUF772); Region: DUF772; cl15789 323097008917 Transposase domain (DUF772); Region: DUF772; cl15789 323097008918 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 323097008919 nucleoside/Zn binding site; other site 323097008920 dimer interface [polypeptide binding]; other site 323097008921 catalytic motif [active] 323097008922 Protein of unknown function, DUF486; Region: DUF486; cl01236 323097008923 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 323097008924 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 323097008925 catalytic residues [active] 323097008926 dimer interface [polypeptide binding]; other site 323097008927 bifunctional transaldolase/phosoglucose isomerase; Validated; Region: PRK09533 323097008928 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 323097008929 putative active site [active] 323097008930 catalytic residue [active] 323097008931 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 323097008932 active site 323097008933 dimer interface [polypeptide binding]; other site 323097008934 SIS_TAL_PGI: Transaldolase (TAL)/ Phosphoglucose isomerase (PGI). This group represents the SIS (Sugar ISomerase) PGI domain, of a multifunctional protein (TAL-PGI ) having both TAL and PGI activities. TAL_PGI contains an N-terminal TAL domain and a...; Region: SIS_TAL_PGI; cd05798 323097008935 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097008936 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK12490 323097008937 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 323097008938 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 323097008939 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 323097008940 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 323097008941 putative active site [active] 323097008942 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 323097008943 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 323097008944 ATP-binding site [chemical binding]; other site 323097008945 Gluconate-6-phosphate binding site [chemical binding]; other site 323097008946 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 323097008947 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 323097008948 active site 323097008949 motif I; other site 323097008950 motif II; other site 323097008951 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 323097008952 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 323097008953 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 323097008954 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 323097008955 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323097008956 metal binding site [ion binding]; metal-binding site 323097008957 active site 323097008958 I-site; other site 323097008959 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 323097008960 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 323097008961 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 323097008962 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 323097008963 putative substrate translocation pore; other site 323097008964 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 323097008965 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 323097008966 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097008967 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097008968 LysR family transcriptional regulator; Provisional; Region: PRK14997 323097008969 Helix-turn-helix domains; Region: HTH; cl00088 323097008970 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 323097008971 putative effector binding pocket; other site 323097008972 dimerization interface [polypeptide binding]; other site 323097008973 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 323097008974 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 323097008975 Cytochrome c; Region: Cytochrom_C; cl11414 323097008976 Cytochrome c; Region: Cytochrom_C; cl11414 323097008977 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 323097008978 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 323097008979 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 323097008980 TPR motif; other site 323097008981 binding surface 323097008982 Helix-turn-helix domains; Region: HTH; cl00088 323097008983 Rrf2 family protein; Region: rrf2_super; TIGR00738 323097008984 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 323097008985 putative [Fe4-S4] binding site [ion binding]; other site 323097008986 putative molybdopterin cofactor binding site [chemical binding]; other site 323097008987 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 323097008988 The MopB_CT_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. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 323097008989 putative molybdopterin cofactor binding site; other site 323097008990 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 323097008991 Transposase domain (DUF772); Region: DUF772; cl15789 323097008992 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097008993 Transposase domain (DUF772); Region: DUF772; cl15789 323097008994 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 323097008995 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 323097008996 N-terminal plug; other site 323097008997 ligand-binding site [chemical binding]; other site 323097008998 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 323097008999 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097009000 active site 323097009001 phosphorylation site [posttranslational modification] 323097009002 intermolecular recognition site; other site 323097009003 dimerization interface [polypeptide binding]; other site 323097009004 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 323097009005 DNA binding site [nucleotide binding] 323097009006 sensor protein QseC; Provisional; Region: PRK10337 323097009007 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 323097009008 dimer interface [polypeptide binding]; other site 323097009009 phosphorylation site [posttranslational modification] 323097009010 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 323097009011 ATP binding site [chemical binding]; other site 323097009012 Mg2+ binding site [ion binding]; other site 323097009013 G-X-G motif; other site 323097009014 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 323097009015 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 323097009016 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 323097009017 dimer interface [polypeptide binding]; other site 323097009018 phosphorylation site [posttranslational modification] 323097009019 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 323097009020 ATP binding site [chemical binding]; other site 323097009021 Mg2+ binding site [ion binding]; other site 323097009022 G-X-G motif; other site 323097009023 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 323097009024 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097009025 active site 323097009026 phosphorylation site [posttranslational modification] 323097009027 intermolecular recognition site; other site 323097009028 dimerization interface [polypeptide binding]; other site 323097009029 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 323097009030 DNA binding site [nucleotide binding] 323097009031 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 323097009032 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 323097009033 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097009034 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 323097009035 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 323097009036 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 323097009037 heme-binding site [chemical binding]; other site 323097009038 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 323097009039 Rhamnan synthesis protein F; Region: RgpF; cl01529 323097009040 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097009041 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 323097009042 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 323097009043 DNA binding site [nucleotide binding] 323097009044 Int/Topo IB signature motif; other site 323097009045 active site 323097009046 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 323097009047 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 323097009048 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 323097009049 Phage Tail Protein X; Region: Phage_tail_X; cl02088 323097009050 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 323097009051 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 323097009052 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 323097009053 Phage tail tube protein FII; Region: Phage_tube; cl01390 323097009054 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 323097009055 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 323097009056 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 323097009057 long tail fiber, proximal subunit; Provisional; Region: 34; PHA02584 323097009058 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 323097009059 Baseplate J-like protein; Region: Baseplate_J; cl01294 323097009060 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 323097009061 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 323097009062 Uncharacterized conserved protein (DUF2190); Region: DUF2190; cl02289 323097009063 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; cl05448 323097009064 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 323097009065 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 323097009066 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 323097009067 Low affinity iron permease; Region: Iron_permease; cl12096 323097009068 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 323097009069 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 323097009070 AAA domain; Region: AAA_25; pfam13481 323097009071 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097009072 Walker A motif; other site 323097009073 ATP binding site [chemical binding]; other site 323097009074 Walker B motif; other site 323097009075 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 323097009076 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 323097009077 Catalytic site [active] 323097009078 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 323097009079 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 323097009080 sequence-specific DNA binding site [nucleotide binding]; other site 323097009081 salt bridge; other site 323097009082 Domain of unknown function (DUF955); Region: DUF955; cl01076 323097009083 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 323097009084 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 323097009085 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 323097009086 DNA binding site [nucleotide binding] 323097009087 Int/Topo IB signature motif; other site 323097009088 active site 323097009089 catalytic residues [active] 323097009090 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 323097009091 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 323097009092 N-terminal plug; other site 323097009093 ligand-binding site [chemical binding]; other site 323097009094 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 323097009095 FHIPEP family; Region: FHIPEP; pfam00771 323097009096 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 323097009097 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08927 323097009098 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 323097009099 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 323097009100 Walker A motif/ATP binding site; other site 323097009101 Walker B motif; other site 323097009102 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 323097009103 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097009104 active site 323097009105 phosphorylation site [posttranslational modification] 323097009106 intermolecular recognition site; other site 323097009107 dimerization interface [polypeptide binding]; other site 323097009108 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 323097009109 DNA binding site [nucleotide binding] 323097009110 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 323097009111 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 323097009112 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097009113 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 323097009114 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097009115 active site 323097009116 phosphorylation site [posttranslational modification] 323097009117 intermolecular recognition site; other site 323097009118 dimerization interface [polypeptide binding]; other site 323097009119 CheB methylesterase; Region: CheB_methylest; pfam01339 323097009120 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097009121 Response regulator receiver domain; Region: Response_reg; pfam00072 323097009122 active site 323097009123 phosphorylation site [posttranslational modification] 323097009124 intermolecular recognition site; other site 323097009125 dimerization interface [polypeptide binding]; other site 323097009126 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 323097009127 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 323097009128 putative binding surface; other site 323097009129 active site 323097009130 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 323097009131 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 323097009132 ATP binding site [chemical binding]; other site 323097009133 Mg2+ binding site [ion binding]; other site 323097009134 G-X-G motif; other site 323097009135 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 323097009136 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 323097009137 Response regulator receiver domain; Region: Response_reg; pfam00072 323097009138 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097009139 active site 323097009140 phosphorylation site [posttranslational modification] 323097009141 intermolecular recognition site; other site 323097009142 dimerization interface [polypeptide binding]; other site 323097009143 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 323097009144 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 323097009145 active site 323097009146 Protein of unknown function (DUF1134); Region: DUF1134; cl02235 323097009147 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 323097009148 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 323097009149 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 323097009150 active site 323097009151 metal binding site [ion binding]; metal-binding site 323097009152 hypothetical protein; Validated; Region: PRK07586 323097009153 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 323097009154 PYR/PP interface [polypeptide binding]; other site 323097009155 dimer interface [polypeptide binding]; other site 323097009156 TPP binding site [chemical binding]; other site 323097009157 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 323097009158 TPP-binding site [chemical binding]; other site 323097009159 dimer interface [polypeptide binding]; other site 323097009160 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 323097009161 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 323097009162 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 323097009163 isovaleryl-CoA dehydrogenase; Region: PLN02519 323097009164 substrate binding site [chemical binding]; other site 323097009165 FAD binding site [chemical binding]; other site 323097009166 catalytic base [active] 323097009167 Haemolysin-III related; Region: HlyIII; cl03831 323097009168 YcjX-like family, DUF463; Region: DUF463; cl01193 323097009169 Domain of unknown function (DUF697); Region: DUF697; cl12064 323097009170 Transposase domain (DUF772); Region: DUF772; cl15789 323097009171 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097009172 Transposase domain (DUF772); Region: DUF772; cl15789 323097009173 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 323097009174 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 323097009175 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 323097009176 sulfite oxidase; Provisional; Region: PLN00177 323097009177 Moco binding site; other site 323097009178 metal coordination site [ion binding]; other site 323097009179 Cytochrome c; Region: Cytochrom_C; cl11414 323097009180 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 protein; Region: CSP_CDS; cd04458 323097009181 DNA-binding site [nucleotide binding]; DNA binding site 323097009182 RNA-binding motif; other site 323097009183 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 323097009184 Proline dehydrogenase; Region: Pro_dh; cl03282 323097009185 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 323097009186 Glutamate binding site [chemical binding]; other site 323097009187 NAD binding site [chemical binding]; other site 323097009188 catalytic residues [active] 323097009189 Repair protein; Region: Repair_PSII; cl01535 323097009190 Repair protein; Region: Repair_PSII; cl01535 323097009191 LemA family; Region: LemA; cl00742 323097009192 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 323097009193 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; cl09108 323097009194 active site 323097009195 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; cl15357 323097009196 Flavin Reductases; Region: FlaRed; cl00801 323097009197 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 323097009198 active site 323097009199 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 323097009200 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 323097009201 Mechanosensitive ion channel; Region: MS_channel; pfam00924 323097009202 Helix-turn-helix domains; Region: HTH; cl00088 323097009203 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097009204 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 323097009205 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 323097009206 N- and C-terminal domain interface [polypeptide binding]; other site 323097009207 putative active site [active] 323097009208 putative MgATP binding site [chemical binding]; other site 323097009209 catalytic site [active] 323097009210 metal binding site [ion binding]; metal-binding site 323097009211 carbohydrate binding site [chemical binding]; other site 323097009212 putative homodimer interface [polypeptide binding]; other site 323097009213 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 323097009214 KpsF/GutQ family protein; Region: kpsF; TIGR00393 323097009215 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 323097009216 putative active site [active] 323097009217 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 323097009218 Transposase domain (DUF772); Region: DUF772; cl15789 323097009219 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097009220 Transposase domain (DUF772); Region: DUF772; cl15789 323097009221 ferrochelatase; Reviewed; Region: hemH; PRK00035 323097009222 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 323097009223 C-terminal domain interface [polypeptide binding]; other site 323097009224 active site 323097009225 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 323097009226 active site 323097009227 N-terminal domain interface [polypeptide binding]; other site 323097009228 MAPEG family; Region: MAPEG; cl09190 323097009229 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 323097009230 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 323097009231 active site 323097009232 Zn binding site [ion binding]; other site 323097009233 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 323097009234 dimer interface [polypeptide binding]; other site 323097009235 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 323097009236 active site 323097009237 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 323097009238 catalytic residues [active] 323097009239 substrate binding site [chemical binding]; other site 323097009240 Predicted acetyltransferase [General function prediction only]; Region: COG3153 323097009241 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 323097009242 Coenzyme A binding pocket [chemical binding]; other site 323097009243 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 323097009244 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 323097009245 Cation efflux family; Region: Cation_efflux; cl00316 323097009246 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 323097009247 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 323097009248 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 323097009249 structural tetrad; other site 323097009250 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 323097009251 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 323097009252 P-loop, Walker A motif; other site 323097009253 Base recognition motif; other site 323097009254 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 323097009255 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 323097009256 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 323097009257 metal binding site [ion binding]; metal-binding site 323097009258 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 323097009259 ABC-ATPase subunit interface; other site 323097009260 dimer interface [polypeptide binding]; other site 323097009261 putative PBP binding regions; other site 323097009262 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 323097009263 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 323097009264 CrcB-like protein; Region: CRCB; cl09114 323097009265 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 323097009266 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 323097009267 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 323097009268 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 323097009269 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 323097009270 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 323097009271 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 323097009272 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 323097009273 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 323097009274 putative homotetramer interface [polypeptide binding]; other site 323097009275 putative homodimer interface [polypeptide binding]; other site 323097009276 putative allosteric switch controlling residues; other site 323097009277 putative metal binding site [ion binding]; other site 323097009278 putative homodimer-homodimer interface [polypeptide binding]; other site 323097009279 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 protein; Region: CSP_CDS; cd04458 323097009280 DNA-binding site [nucleotide binding]; DNA binding site 323097009281 RNA-binding motif; other site 323097009282 Integrase core domain; Region: rve; cl01316 323097009283 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 323097009284 Winged helix-turn helix; Region: HTH_29; pfam13551 323097009285 Helix-turn-helix domains; Region: HTH; cl00088 323097009286 Helix-turn-helix domains; Region: HTH; cl00088 323097009287 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 323097009288 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 323097009289 ATP binding site [chemical binding]; other site 323097009290 putative Mg++ binding site [ion binding]; other site 323097009291 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 323097009292 nucleotide binding region [chemical binding]; other site 323097009293 ATP-binding site [chemical binding]; other site 323097009294 RQC domain; Region: RQC; cl09632 323097009295 HRDC domain; Region: HRDC; cl02578 323097009296 Transposase domain (DUF772); Region: DUF772; cl15789 323097009297 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097009298 Transposase domain (DUF772); Region: DUF772; cl15789 323097009299 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_1; cd09319 323097009300 gating phenylalanine in ion channel; other site 323097009301 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 323097009302 putative substrate translocation pore; other site 323097009303 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 323097009304 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 323097009305 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 323097009306 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 323097009307 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 323097009308 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 323097009309 [4Fe-4S] binding site [ion binding]; other site 323097009310 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 323097009311 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 323097009312 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 323097009313 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 323097009314 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 323097009315 molybdopterin cofactor binding site; other site 323097009316 Cytochrome c; Region: Cytochrom_C; cl11414 323097009317 Cytochrome c; Region: Cytochrom_C; cl11414 323097009318 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 323097009319 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 323097009320 D-pathway; other site 323097009321 Putative ubiquinol binding site [chemical binding]; other site 323097009322 Low-spin heme (heme b) binding site [chemical binding]; other site 323097009323 Putative water exit pathway; other site 323097009324 Binuclear center (heme o3/CuB) [ion binding]; other site 323097009325 K-pathway; other site 323097009326 Putative proton exit pathway; other site 323097009327 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 323097009328 Subunit I/III interface [polypeptide binding]; other site 323097009329 Subunit III/IV interface [polypeptide binding]; other site 323097009330 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 323097009331 Protein of unknown function (DUF1059); Region: DUF1059; cl02284 323097009332 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 323097009333 Protein of unknown function (DUF983); Region: DUF983; cl02211 323097009334 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 323097009335 Subunit III/VIIa interface [polypeptide binding]; other site 323097009336 Phospholipid binding site [chemical binding]; other site 323097009337 Subunit I/III interface [polypeptide binding]; other site 323097009338 Subunit III/VIb interface [polypeptide binding]; other site 323097009339 Subunit III/VIa interface; other site 323097009340 Subunit III/Vb interface [polypeptide binding]; other site 323097009341 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 323097009342 UbiA prenyltransferase family; Region: UbiA; cl00337 323097009343 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 323097009344 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 323097009345 Subunit I/III interface [polypeptide binding]; other site 323097009346 D-pathway; other site 323097009347 Subunit I/VIIc interface [polypeptide binding]; other site 323097009348 Subunit I/IV interface [polypeptide binding]; other site 323097009349 Subunit I/II interface [polypeptide binding]; other site 323097009350 Low-spin heme (heme a) binding site [chemical binding]; other site 323097009351 Subunit I/VIIa interface [polypeptide binding]; other site 323097009352 Subunit I/VIa interface [polypeptide binding]; other site 323097009353 Dimer interface; other site 323097009354 Putative water exit pathway; other site 323097009355 Binuclear center (heme a3/CuB) [ion binding]; other site 323097009356 K-pathway; other site 323097009357 Subunit I/Vb interface [polypeptide binding]; other site 323097009358 Putative proton exit pathway; other site 323097009359 Subunit I/VIb interface; other site 323097009360 Subunit I/VIc interface [polypeptide binding]; other site 323097009361 Electron transfer pathway; other site 323097009362 Subunit I/VIIIb interface [polypeptide binding]; other site 323097009363 Subunit I/VIIb interface [polypeptide binding]; other site 323097009364 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 323097009365 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00154 323097009366 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 323097009367 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 323097009368 homodimer interaction site [polypeptide binding]; other site 323097009369 cofactor binding site; other site 323097009370 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097009371 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 323097009372 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 323097009373 P-loop, Walker A motif; other site 323097009374 Base recognition motif; other site 323097009375 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 323097009376 Domain of unknown function DUF59; Region: DUF59; cl00941 323097009377 Cytochrome c; Region: Cytochrom_C; cl11414 323097009378 diaminopimelate decarboxylase; Region: lysA; TIGR01048 323097009379 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 323097009380 active site 323097009381 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 323097009382 substrate binding site [chemical binding]; other site 323097009383 catalytic residues [active] 323097009384 dimer interface [polypeptide binding]; other site 323097009385 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 323097009386 argininosuccinate lyase; Provisional; Region: PRK00855 323097009387 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 323097009388 active sites [active] 323097009389 tetramer interface [polypeptide binding]; other site 323097009390 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 323097009391 catalytic residues [active] 323097009392 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 323097009393 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097009394 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 323097009395 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 323097009396 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 323097009397 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 323097009398 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 323097009399 Ligand binding site [chemical binding]; other site 323097009400 Electron transfer flavoprotein domain; Region: ETF; pfam01012 323097009401 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 323097009402 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 323097009403 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 323097009404 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 323097009405 dimer interface [polypeptide binding]; other site 323097009406 phosphorylation site [posttranslational modification] 323097009407 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 323097009408 ATP binding site [chemical binding]; other site 323097009409 Mg2+ binding site [ion binding]; other site 323097009410 G-X-G motif; other site 323097009411 Response regulator receiver domain; Region: Response_reg; pfam00072 323097009412 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097009413 active site 323097009414 phosphorylation site [posttranslational modification] 323097009415 intermolecular recognition site; other site 323097009416 dimerization interface [polypeptide binding]; other site 323097009417 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 323097009418 active site 323097009419 HIGH motif; other site 323097009420 nucleotide binding site [chemical binding]; other site 323097009421 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 323097009422 active site 323097009423 KMSKS motif; other site 323097009424 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 323097009425 endonuclease III; Region: ENDO3c; smart00478 323097009426 minor groove reading motif; other site 323097009427 helix-hairpin-helix signature motif; other site 323097009428 substrate binding pocket [chemical binding]; other site 323097009429 active site 323097009430 PAS domain S-box; Region: sensory_box; TIGR00229 323097009431 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 323097009432 putative active site [active] 323097009433 heme pocket [chemical binding]; other site 323097009434 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 323097009435 dimer interface [polypeptide binding]; other site 323097009436 phosphorylation site [posttranslational modification] 323097009437 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 323097009438 ATP binding site [chemical binding]; other site 323097009439 Mg2+ binding site [ion binding]; other site 323097009440 G-X-G motif; other site 323097009441 Response regulator receiver domain; Region: Response_reg; pfam00072 323097009442 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097009443 active site 323097009444 phosphorylation site [posttranslational modification] 323097009445 intermolecular recognition site; other site 323097009446 dimerization interface [polypeptide binding]; other site 323097009447 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 323097009448 active site 323097009449 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 323097009450 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 323097009451 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 323097009452 protein binding site [polypeptide binding]; other site 323097009453 Helix-turn-helix domains; Region: HTH; cl00088 323097009454 Predicted transcriptional regulator [Transcription]; Region: COG1959 323097009455 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 323097009456 apolar tunnel; other site 323097009457 heme binding site [chemical binding]; other site 323097009458 dimerization interface [polypeptide binding]; other site 323097009459 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 323097009460 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 323097009461 catalytic residues [active] 323097009462 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 323097009463 Domain of unknown function (DUF1743); Region: DUF1743; cl07202 323097009464 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 323097009465 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 323097009466 N-terminal plug; other site 323097009467 ligand-binding site [chemical binding]; other site 323097009468 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 323097009469 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 323097009470 NADP binding site [chemical binding]; other site 323097009471 dimer interface [polypeptide binding]; other site 323097009472 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 323097009473 Major Facilitator Superfamily; Region: MFS_1; pfam07690 323097009474 putative substrate translocation pore; other site 323097009475 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 323097009476 pyruvate phosphate dikinase; Provisional; Region: PRK09279 323097009477 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 323097009478 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 323097009479 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; cl09155 323097009480 FtsH Extracellular; Region: FtsH_ext; pfam06480 323097009481 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 323097009482 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 323097009483 Walker A motif; other site 323097009484 ATP binding site [chemical binding]; other site 323097009485 Walker B motif; other site 323097009486 arginine finger; other site 323097009487 Peptidase family M41; Region: Peptidase_M41; pfam01434 323097009488 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 323097009489 Ligand Binding Site [chemical binding]; other site 323097009490 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 323097009491 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 323097009492 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 323097009493 ligand binding site [chemical binding]; other site 323097009494 hypothetical protein; Provisional; Region: PRK14852 323097009495 PAS fold; Region: PAS_7; pfam12860 323097009496 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323097009497 metal binding site [ion binding]; metal-binding site 323097009498 active site 323097009499 I-site; other site 323097009500 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 323097009501 translocation protein TolB; Provisional; Region: tolB; PRK05137 323097009502 TolB amino-terminal domain; Region: TolB_N; cl00639 323097009503 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 323097009504 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 323097009505 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 323097009506 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 323097009507 TolA protein; Region: tolA_full; TIGR02794 323097009508 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 323097009509 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 323097009510 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 323097009511 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 323097009512 Helix-turn-helix domains; Region: HTH; cl00088 323097009513 WHG domain; Region: WHG; pfam13305 323097009514 YCII-related domain; Region: YCII; cl00999 323097009515 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323097009516 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 323097009517 dimer interface [polypeptide binding]; other site 323097009518 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 323097009519 active site 323097009520 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 323097009521 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 323097009522 Walker A motif; other site 323097009523 ATP binding site [chemical binding]; other site 323097009524 Walker B motif; other site 323097009525 arginine finger; other site 323097009526 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 323097009527 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 323097009528 RuvA N terminal domain; Region: RuvA_N; pfam01330 323097009529 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 323097009530 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 323097009531 active site 323097009532 putative DNA-binding cleft [nucleotide binding]; other site 323097009533 dimer interface [polypeptide binding]; other site 323097009534 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 323097009535 MgtE intracellular N domain; Region: MgtE_N; cl15244 323097009536 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 323097009537 Divalent cation transporter; Region: MgtE; cl00786 323097009538 Transcriptional regulator; Region: Transcrip_reg; cl00361 323097009539 Protein of unknown function, DUF488; Region: DUF488; cl01246 323097009540 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 323097009541 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 323097009542 putative active site [active] 323097009543 metal binding site [ion binding]; metal-binding site 323097009544 homodimer binding site [polypeptide binding]; other site 323097009545 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 323097009546 Cell division protein ZapA; Region: ZapA; cl01146 323097009547 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 323097009548 transketolase; Reviewed; Region: PRK05899 323097009549 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 323097009550 TPP-binding site [chemical binding]; other site 323097009551 dimer interface [polypeptide binding]; other site 323097009552 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 323097009553 PYR/PP interface [polypeptide binding]; other site 323097009554 dimer interface [polypeptide binding]; other site 323097009555 TPP binding site [chemical binding]; other site 323097009556 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097009557 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 323097009558 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 323097009559 Phosphoglycerate kinase; Region: PGK; pfam00162 323097009560 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 323097009561 substrate binding site [chemical binding]; other site 323097009562 hinge regions; other site 323097009563 ADP binding site [chemical binding]; other site 323097009564 catalytic site [active] 323097009565 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 323097009566 active site 323097009567 intersubunit interface [polypeptide binding]; other site 323097009568 catalytic residue [active] 323097009569 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 323097009570 active site 323097009571 pyrophosphate binding site [ion binding]; other site 323097009572 thiamine phosphate binding site [chemical binding]; other site 323097009573 Sel1 repeat; Region: Sel1; cl02723 323097009574 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 323097009575 Sel1 repeat; Region: Sel1; cl02723 323097009576 Sel1 repeat; Region: Sel1; cl02723 323097009577 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 323097009578 active site 323097009579 dimerization interface [polypeptide binding]; other site 323097009580 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 323097009581 Protein export membrane protein; Region: SecD_SecF; cl14618 323097009582 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 323097009583 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097009584 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097009585 hypothetical protein; Validated; Region: PRK09039 323097009586 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 323097009587 ligand binding site [chemical binding]; other site 323097009588 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 323097009589 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 323097009590 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 323097009591 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 323097009592 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097009593 Walker A/P-loop; other site 323097009594 ATP binding site [chemical binding]; other site 323097009595 Q-loop/lid; other site 323097009596 ABC transporter signature motif; other site 323097009597 Walker B; other site 323097009598 D-loop; other site 323097009599 H-loop/switch region; other site 323097009600 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 323097009601 Protein of unknown function (DUF1465); Region: DUF1465; cl11562 323097009602 Protein of unknown function (DUF1192); Region: DUF1192; cl11573 323097009603 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 323097009604 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 323097009605 NAD(P) binding site [chemical binding]; other site 323097009606 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 323097009607 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 323097009608 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 323097009609 PAS fold; Region: PAS_3; pfam08447 323097009610 putative active site [active] 323097009611 heme pocket [chemical binding]; other site 323097009612 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 323097009613 metal binding site [ion binding]; metal-binding site 323097009614 active site 323097009615 I-site; other site 323097009616 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 323097009617 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 323097009618 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 323097009619 Transposase domain (DUF772); Region: DUF772; cl15789 323097009620 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097009621 Transposase domain (DUF772); Region: DUF772; cl15789 323097009622 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 323097009623 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 323097009624 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 323097009625 NAD binding site [chemical binding]; other site 323097009626 homotetramer interface [polypeptide binding]; other site 323097009627 homodimer interface [polypeptide binding]; other site 323097009628 substrate binding site [chemical binding]; other site 323097009629 active site 323097009630 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 323097009631 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 323097009632 active site 323097009633 nucleophile elbow; other site 323097009634 Patatin phospholipase; Region: DUF3734; pfam12536 323097009635 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 323097009636 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 323097009637 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 323097009638 Walker A/P-loop; other site 323097009639 ATP binding site [chemical binding]; other site 323097009640 Q-loop/lid; other site 323097009641 ABC transporter signature motif; other site 323097009642 Walker B; other site 323097009643 D-loop; other site 323097009644 H-loop/switch region; other site 323097009645 TOBE-like domain; Region: TOBE_3; pfam12857 323097009646 sulfate transport protein; Provisional; Region: cysT; CHL00187 323097009647 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 323097009648 dimer interface [polypeptide binding]; other site 323097009649 conserved gate region; other site 323097009650 putative PBP binding loops; other site 323097009651 ABC-ATPase subunit interface; other site 323097009652 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 323097009653 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 323097009654 dimer interface [polypeptide binding]; other site 323097009655 conserved gate region; other site 323097009656 putative PBP binding loops; other site 323097009657 ABC-ATPase subunit interface; other site 323097009658 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; cl15306 323097009659 substrate binding pocket [chemical binding]; other site 323097009660 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 323097009661 membrane-bound complex binding site; other site 323097009662 hinge residues; other site 323097009663 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 323097009664 Active Sites [active] 323097009665 siroheme synthase; Provisional; Region: cysG; PRK10637 323097009666 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097009667 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 323097009668 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 323097009669 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 323097009670 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 323097009671 Active Sites [active] 323097009672 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097009673 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 323097009674 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 323097009675 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 323097009676 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 important for the assimilation of...; Region: APSK; cd02027 323097009677 ligand-binding site [chemical binding]; other site 323097009678 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; cl09155 323097009679 active site 323097009680 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 323097009681 two-component response regulator; Provisional; Region: PRK09191 323097009682 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097009683 active site 323097009684 phosphorylation site [posttranslational modification] 323097009685 intermolecular recognition site; other site 323097009686 dimerization interface [polypeptide binding]; other site 323097009687 RNA polymerase sigma factor; Provisional; Region: PRK12540 323097009688 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323097009689 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 323097009690 DNA binding residues [nucleotide binding] 323097009691 CHASE domain; Region: CHASE; cl01369 323097009692 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 323097009693 Histidine kinase; Region: HisKA_2; cl06527 323097009694 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 323097009695 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 323097009696 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 323097009697 FeS/SAM binding site; other site 323097009698 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 323097009699 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 323097009700 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 323097009701 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 323097009702 Protein of unknown function (DUF541); Region: SIMPL; cl01077 323097009703 signal recognition particle protein; Provisional; Region: PRK10867 323097009704 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 323097009705 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 323097009706 P loop; other site 323097009707 GTP binding site [chemical binding]; other site 323097009708 Signal peptide binding domain; Region: SRP_SPB; pfam02978 323097009709 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 323097009710 RimM N-terminal domain; Region: RimM; pfam01782 323097009711 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 323097009712 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 323097009713 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 323097009714 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 323097009715 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 323097009716 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 323097009717 substrate binding site [chemical binding]; other site 323097009718 ligand binding site [chemical binding]; other site 323097009719 Possibl zinc metallo-peptidase; Region: DUF1025; cl01577 323097009720 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 323097009721 substrate binding site [chemical binding]; other site 323097009722 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 323097009723 active site clefts [active] 323097009724 zinc binding site [ion binding]; other site 323097009725 dimer interface [polypeptide binding]; other site 323097009726 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 323097009727 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097009728 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 323097009729 tartrate dehydrogenase; Provisional; Region: PRK08194 323097009730 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 323097009731 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 323097009732 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 323097009733 E-class dimer interface [polypeptide binding]; other site 323097009734 P-class dimer interface [polypeptide binding]; other site 323097009735 active site 323097009736 Cu2+ binding site [ion binding]; other site 323097009737 Zn2+ binding site [ion binding]; other site 323097009738 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 323097009739 Moco binding site; other site 323097009740 metal coordination site [ion binding]; other site 323097009741 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 323097009742 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 323097009743 malonyl-CoA synthase; Validated; Region: PRK07514 323097009744 AMP-binding enzyme; Region: AMP-binding; cl15778 323097009745 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 323097009746 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 323097009747 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 323097009748 Protein export membrane protein; Region: SecD_SecF; cl14618 323097009749 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 323097009750 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 323097009751 Protein export membrane protein; Region: SecD_SecF; cl14618 323097009752 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 323097009753 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097009754 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097009755 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 323097009756 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097009757 lipoyl-biotinyl attachment site [posttranslational modification]; other site 323097009758 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097009759 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 323097009760 substrate pocket [chemical binding]; other site 323097009761 active site 323097009762 dimer interface [polypeptide binding]; other site 323097009763 proteolytic cleavage site; other site 323097009764 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 323097009765 AsmA family; Region: AsmA; pfam05170 323097009766 AsmA-like C-terminal region; Region: AsmA_2; cl15864 323097009767 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 323097009768 Protein export membrane protein; Region: SecD_SecF; cl14618 323097009769 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 323097009770 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 323097009771 benzoate transport; Region: 2A0115; TIGR00895 323097009772 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 323097009773 putative substrate translocation pore; other site 323097009774 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 323097009775 putative substrate translocation pore; other site 323097009776 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 323097009777 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 323097009778 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 323097009779 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 323097009780 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 323097009781 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 323097009782 active site 323097009783 homotetramer interface [polypeptide binding]; other site 323097009784 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 323097009785 Iron-sulfur protein interface; other site 323097009786 proximal quinone binding site [chemical binding]; other site 323097009787 SdhD (CybS) interface [polypeptide binding]; other site 323097009788 proximal heme binding site [chemical binding]; other site 323097009789 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 323097009790 putative SdhC subunit interface [polypeptide binding]; other site 323097009791 putative proximal heme binding site [chemical binding]; other site 323097009792 putative Iron-sulfur protein interface [polypeptide binding]; other site 323097009793 putative proximal quinone binding site; other site 323097009794 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 323097009795 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097009796 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 323097009797 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 323097009798 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; cl00159 323097009799 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 323097009800 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 323097009801 ligand binding site [chemical binding]; other site 323097009802 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 323097009803 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 323097009804 ANP binding site [chemical binding]; other site 323097009805 Substrate Binding Site II [chemical binding]; other site 323097009806 Substrate Binding Site I [chemical binding]; other site 323097009807 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 323097009808 active site 323097009809 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 323097009810 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 323097009811 FeS/SAM binding site; other site 323097009812 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 323097009813 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 323097009814 aromatic arch; other site 323097009815 DCoH dimer interaction site [polypeptide binding]; other site 323097009816 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 323097009817 DCoH tetramer interaction site [polypeptide binding]; other site 323097009818 substrate binding site [chemical binding]; other site 323097009819 Ferredoxin [Energy production and conversion]; Region: COG1146 323097009820 4Fe-4S binding domain; Region: Fer4; cl02805 323097009821 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 323097009822 Protein of unknown function, DUF488; Region: DUF488; cl01246 323097009823 heat shock protein 90; Provisional; Region: PRK05218 323097009824 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 323097009825 ATP binding site [chemical binding]; other site 323097009826 Mg2+ binding site [ion binding]; other site 323097009827 G-X-G motif; other site 323097009828 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 323097009829 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 323097009830 FlgD Ig-like domain; Region: FlgD_ig; cl15790 323097009831 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 323097009832 Transthyretin-like family; Region: DUF290; pfam01060 323097009833 ApbE family; Region: ApbE; cl00643 323097009834 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 323097009835 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 323097009836 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 323097009837 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 323097009838 N-terminal plug; other site 323097009839 ligand-binding site [chemical binding]; other site 323097009840 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 323097009841 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 323097009842 Gram-negative bacterial tonB protein; Region: TonB; cl10048 323097009843 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 323097009844 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 323097009845 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 323097009846 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 323097009847 Subunit I/III interface [polypeptide binding]; other site 323097009848 D-pathway; other site 323097009849 Subunit I/VIIc interface [polypeptide binding]; other site 323097009850 Subunit I/IV interface [polypeptide binding]; other site 323097009851 Subunit I/II interface [polypeptide binding]; other site 323097009852 Low-spin heme (heme a) binding site [chemical binding]; other site 323097009853 Subunit I/VIIa interface [polypeptide binding]; other site 323097009854 Subunit I/VIa interface [polypeptide binding]; other site 323097009855 Dimer interface; other site 323097009856 Putative water exit pathway; other site 323097009857 Binuclear center (heme a3/CuB) [ion binding]; other site 323097009858 K-pathway; other site 323097009859 Subunit I/Vb interface [polypeptide binding]; other site 323097009860 Putative proton exit pathway; other site 323097009861 Subunit I/VIb interface; other site 323097009862 Subunit I/VIc interface [polypeptide binding]; other site 323097009863 Electron transfer pathway; other site 323097009864 Subunit I/VIIIb interface [polypeptide binding]; other site 323097009865 Subunit I/VIIb interface [polypeptide binding]; other site 323097009866 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323097009867 Helix-turn-helix domains; Region: HTH; cl00088 323097009868 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 323097009869 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 323097009870 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_5; cd06338 323097009871 putative ligand binding site [chemical binding]; other site 323097009872 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 323097009873 TM-ABC transporter signature motif; other site 323097009874 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 323097009875 TM-ABC transporter signature motif; other site 323097009876 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 323097009877 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 323097009878 Walker A/P-loop; other site 323097009879 ATP binding site [chemical binding]; other site 323097009880 Q-loop/lid; other site 323097009881 ABC transporter signature motif; other site 323097009882 Walker B; other site 323097009883 D-loop; other site 323097009884 H-loop/switch region; other site 323097009885 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 323097009886 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 323097009887 Walker A/P-loop; other site 323097009888 ATP binding site [chemical binding]; other site 323097009889 Q-loop/lid; other site 323097009890 ABC transporter signature motif; other site 323097009891 Walker B; other site 323097009892 D-loop; other site 323097009893 H-loop/switch region; other site 323097009894 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 323097009895 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 323097009896 FMN binding site [chemical binding]; other site 323097009897 active site 323097009898 catalytic residues [active] 323097009899 substrate binding site [chemical binding]; other site 323097009900 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 323097009901 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 323097009902 Transposase domain (DUF772); Region: DUF772; cl15789 323097009903 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097009904 Transposase domain (DUF772); Region: DUF772; cl15789 323097009905 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 323097009906 Cupin domain; Region: Cupin_2; cl09118 323097009907 Cupin domain; Region: Cupin_2; cl09118 323097009908 Response regulator receiver domain; Region: Response_reg; pfam00072 323097009909 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 323097009910 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 323097009911 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 323097009912 THF binding site; other site 323097009913 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 323097009914 substrate binding site [chemical binding]; other site 323097009915 THF binding site; other site 323097009916 zinc-binding site [ion binding]; other site 323097009917 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 323097009918 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 323097009919 ATP cone domain; Region: ATP-cone; pfam03477 323097009920 ATP cone domain; Region: ATP-cone; pfam03477 323097009921 Class I ribonucleotide reductase; Region: RNR_I; cd01679 323097009922 active site 323097009923 dimer interface [polypeptide binding]; other site 323097009924 catalytic residues [active] 323097009925 effector binding site; other site 323097009926 R2 peptide binding site; other site 323097009927 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 323097009928 dimer interface [polypeptide binding]; other site 323097009929 putative radical transfer pathway; other site 323097009930 diiron center [ion binding]; other site 323097009931 tyrosyl radical; other site 323097009932 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 323097009933 dimer interface [polypeptide binding]; other site 323097009934 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323097009935 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 323097009936 Helix-turn-helix domains; Region: HTH; cl00088 323097009937 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 323097009938 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 323097009939 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 323097009940 active site residue [active] 323097009941 Domain of unknown function (DUF336); Region: DUF336; cl01249 323097009942 DsrE/DsrF-like family; Region: DrsE; cl00672 323097009943 DsrE/DsrF-like family; Region: DrsE; cl00672 323097009944 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 323097009945 active site 323097009946 metal binding site [ion binding]; metal-binding site 323097009947 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 323097009948 Cytochrome c [Energy production and conversion]; Region: COG3258 323097009949 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 323097009950 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 323097009951 Cytochrome c; Region: Cytochrom_C; cl11414 323097009952 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097009953 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_12; cd07255 323097009954 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 323097009955 putative metal binding site [ion binding]; other site 323097009956 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 323097009957 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 323097009958 substrate binding pocket [chemical binding]; other site 323097009959 membrane-bound complex binding site; other site 323097009960 hinge residues; other site 323097009961 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 323097009962 RNA polymerase sigma factor; Provisional; Region: PRK12515 323097009963 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 323097009964 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 323097009965 DNA binding residues [nucleotide binding] 323097009966 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323097009967 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097009968 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097009969 osmolarity response regulator; Provisional; Region: ompR; PRK09468 323097009970 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 323097009971 active site 323097009972 phosphorylation site [posttranslational modification] 323097009973 intermolecular recognition site; other site 323097009974 dimerization interface [polypeptide binding]; other site 323097009975 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 323097009976 DNA binding site [nucleotide binding] 323097009977 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 323097009978 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 323097009979 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323097009980 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 323097009981 dimer interface [polypeptide binding]; other site 323097009982 phosphorylation site [posttranslational modification] 323097009983 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 323097009984 ATP binding site [chemical binding]; other site 323097009985 Mg2+ binding site [ion binding]; other site 323097009986 G-X-G motif; other site 323097009987 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 323097009988 dimerization interface [polypeptide binding]; other site 323097009989 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 323097009990 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 323097009991 ATP binding site [chemical binding]; other site 323097009992 Mg2+ binding site [ion binding]; other site 323097009993 G-X-G motif; other site 323097009994 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 323097009995 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 323097009996 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 323097009997 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 323097009998 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 323097009999 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 323097010000 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 323097010001 NAD(P) binding site [chemical binding]; other site 323097010002 homotetramer interface [polypeptide binding]; other site 323097010003 homodimer interface [polypeptide binding]; other site 323097010004 active site 323097010005 EamA-like transporter family; Region: EamA; cl01037 323097010006 aromatic amino acid exporter; Provisional; Region: PRK11689 323097010007 muropeptide transporter; Validated; Region: ampG; PRK11010 323097010008 muropeptide transporter; Reviewed; Region: ampG; PRK11902 323097010009 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 323097010010 active site 323097010011 catalytic residues [active] 323097010012 metal binding site [ion binding]; metal-binding site 323097010013 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 323097010014 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 323097010015 putative active site [active] 323097010016 substrate binding site [chemical binding]; other site 323097010017 putative cosubstrate binding site; other site 323097010018 catalytic site [active] 323097010019 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 323097010020 substrate binding site [chemical binding]; other site 323097010021 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 323097010022 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 323097010023 dimerization interface 3.5A [polypeptide binding]; other site 323097010024 active site 323097010025 nucleosidase; Provisional; Region: PRK05634 323097010026 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 323097010027 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 323097010028 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 323097010029 metal binding site [ion binding]; metal-binding site 323097010030 dimer interface [polypeptide binding]; other site 323097010031 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 323097010032 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 323097010033 trimer interface [polypeptide binding]; other site 323097010034 active site 323097010035 substrate binding site [chemical binding]; other site 323097010036 CoA binding site [chemical binding]; other site 323097010037 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 323097010038 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 323097010039 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 323097010040 feedback inhibition sensing region; other site 323097010041 homohexameric interface [polypeptide binding]; other site 323097010042 nucleotide binding site [chemical binding]; other site 323097010043 N-acetyl-L-glutamate binding site [chemical binding]; other site 323097010044 Protein of unknown function (DUF423); Region: DUF423; cl01008 323097010045 Predicted GTPase [General function prediction only]; Region: COG0218 323097010046 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 323097010047 G1 box; other site 323097010048 GTP/Mg2+ binding site [chemical binding]; other site 323097010049 Switch I region; other site 323097010050 G2 box; other site 323097010051 G3 box; other site 323097010052 Switch II region; other site 323097010053 G4 box; other site 323097010054 G5 box; other site 323097010055 membrane protein insertase; Provisional; Region: PRK01318 323097010056 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 323097010057 Ribonuclease P; Region: Ribonuclease_P; cl00457 323097010058 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 323097010059 sensory histidine kinase AtoS; Provisional; Region: PRK11360 323097010060 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 323097010061 ATP binding site [chemical binding]; other site 323097010062 Mg2+ binding site [ion binding]; other site 323097010063 G-X-G motif; other site 323097010064 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097010065 Family description; Region: UvrD_C_2; cl15862 323097010066 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 323097010067 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 323097010068 nucleotide binding region [chemical binding]; other site 323097010069 ATP-binding site [chemical binding]; other site 323097010070 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 323097010071 ATP binding site [chemical binding]; other site 323097010072 Mg2+ binding site [ion binding]; other site 323097010073 G-X-G motif; other site 323097010074 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 323097010075 YegX is an uncharacterized bacterial protein with a glycosyl hydrolase family 25 (GH25) catalytic domain that is similar in sequence to the CH-type (Chalaropsis-type) lysozymes of the GH25 family of endolysins; Region: GH25_YegX-like; cd06524 323097010076 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 323097010077 active site 323097010078 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 323097010079 Integrase core domain; Region: rve; cl01316 323097010080 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 323097010081 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 323097010082 Walker A motif; other site 323097010083 ATP binding site [chemical binding]; other site 323097010084 Walker B motif; other site 323097010085 arginine finger; other site 323097010086 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 323097010087 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 323097010088 N-terminal plug; other site 323097010089 ligand-binding site [chemical binding]; other site 323097010090 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 323097010091 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 323097010092 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 323097010093 N-terminal plug; other site 323097010094 ligand-binding site [chemical binding]; other site 323097010095 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 323097010096 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 323097010097 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 323097010098 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 323097010099 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 323097010100 active site 323097010101 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 323097010102 DNA binding residues [nucleotide binding] 323097010103 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 323097010104 dimer interface [polypeptide binding]; other site 323097010105 putative metal binding site [ion binding]; other site 323097010106 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 323097010107 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 323097010108 metal-binding site [ion binding] 323097010109 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 323097010110 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 323097010111 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 323097010112 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 323097010113 intersubunit interface [polypeptide binding]; other site 323097010114 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 323097010115 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 323097010116 Walker A/P-loop; other site 323097010117 ATP binding site [chemical binding]; other site 323097010118 Q-loop/lid; other site 323097010119 ABC transporter signature motif; other site 323097010120 Walker B; other site 323097010121 D-loop; other site 323097010122 H-loop/switch region; other site 323097010123 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 323097010124 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 323097010125 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 323097010126 putative PBP binding regions; other site 323097010127 ABC-ATPase subunit interface; other site 323097010128 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 323097010129 catalytic triad [active] 323097010130 dimer interface [polypeptide binding]; other site 323097010131 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 323097010132 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 323097010133 AMP-binding enzyme; Region: AMP-binding; cl15778 323097010134 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 323097010135 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 323097010136 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 323097010137 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 323097010138 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 323097010139 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 323097010140 Walker A/P-loop; other site 323097010141 ATP binding site [chemical binding]; other site 323097010142 Q-loop/lid; other site 323097010143 ABC transporter signature motif; other site 323097010144 Walker B; other site 323097010145 D-loop; other site 323097010146 H-loop/switch region; other site 323097010147 NMT1/THI5 like; Region: NMT1; pfam09084 323097010148 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 323097010149 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 323097010150 RNA/DNA hybrid binding site [nucleotide binding]; other site 323097010151 active site 323097010152 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 323097010153 Phosphotransferase enzyme family; Region: APH; pfam01636 323097010154 putative active site [active] 323097010155 putative substrate binding site [chemical binding]; other site 323097010156 ATP binding site [chemical binding]; other site 323097010157 LytB protein; Region: LYTB; cl00507 323097010158 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 323097010159 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 323097010160 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 323097010161 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 323097010162 AMP-binding enzyme; Region: AMP-binding; cl15778 323097010163 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 323097010164 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 323097010165 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 323097010166 Walker A motif; other site 323097010167 ATP binding site [chemical binding]; other site 323097010168 Walker B motif; other site 323097010169 arginine finger; other site 323097010170 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 323097010171 multimerization interface [polypeptide binding]; other site 323097010172 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 323097010173 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 323097010174 homodimer interface [polypeptide binding]; other site 323097010175 active site 323097010176 heterodimer interface [polypeptide binding]; other site 323097010177 catalytic residue [active] 323097010178 metal binding site [ion binding]; metal-binding site 323097010179 hypothetical protein; Provisional; Region: PRK08185 323097010180 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 323097010181 intersubunit interface [polypeptide binding]; other site 323097010182 active site 323097010183 zinc binding site [ion binding]; other site 323097010184 Na+ binding site [ion binding]; other site 323097010185 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097010186 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 323097010187 metal binding site [ion binding]; metal-binding site 323097010188 active site 323097010189 Transcriptional regulator [Transcription]; Region: LysR; COG0583 323097010190 Helix-turn-helix domains; Region: HTH; cl00088 323097010191 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 323097010192 putative dimerization interface [polypeptide binding]; other site 323097010193 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 catalyze...; Region: LT_GEWL; cd00254 323097010194 N-acetyl-D-glucosamine binding site [chemical binding]; other site 323097010195 catalytic residue [active] 323097010196 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 323097010197 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 323097010198 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 323097010199 generic binding surface II; other site 323097010200 generic binding surface I; other site 323097010201 DNA Polymerase Y-family; Region: PolY_like; cd03468 323097010202 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 323097010203 DNA binding site [nucleotide binding] 323097010204 Cell division inhibitor SulA; Region: SulA; cl01880 323097010205 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 323097010206 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097010207 Family description; Region: UvrD_C_2; cl15862 323097010208 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323097010209 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097010210 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097010211 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 323097010212 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 323097010213 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 323097010214 putative substrate translocation pore; other site 323097010215 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 323097010216 active site 323097010217 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 323097010218 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 323097010219 putative active site [active] 323097010220 putative metal binding site [ion binding]; other site 323097010221 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097010222 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 323097010223 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 323097010224 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 323097010225 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 323097010226 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 323097010227 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 323097010228 ATP binding site [chemical binding]; other site 323097010229 Mg2+ binding site [ion binding]; other site 323097010230 G-X-G motif; other site 323097010231 Transposase domain (DUF772); Region: DUF772; cl15789 323097010232 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097010233 Transposase domain (DUF772); Region: DUF772; cl15789 323097010234 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 323097010235 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 323097010236 RES domain; Region: RES; cl02411 323097010237 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 323097010238 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 323097010239 dinuclear metal binding motif [ion binding]; other site 323097010240 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 323097010241 putative diguanylate cyclase; Provisional; Region: PRK09776 323097010242 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 323097010243 Histidine kinase; Region: HisKA_2; cl06527 323097010244 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; cl12088 323097010245 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 323097010246 Helix-turn-helix domains; Region: HTH; cl00088 323097010247 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 323097010248 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 323097010249 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 323097010250 Integrase core domain; Region: rve; cl01316 323097010251 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 323097010252 BA14K-like protein; Region: BA14K; pfam07886 323097010253 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 323097010254 putative active site [active] 323097010255 heme pocket [chemical binding]; other site 323097010256 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 323097010257 Histidine kinase; Region: HisKA_2; cl06527 323097010258 Helix-turn-helix domains; Region: HTH; cl00088 323097010259 Helix-turn-helix domains; Region: HTH; cl00088 323097010260 putative transposase OrfB; Reviewed; Region: PHA02517 323097010261 Helix-turn-helix domains; Region: HTH; cl00088 323097010262 Integrase core domain; Region: rve; cl01316 323097010263 Integrase core domain; Region: rve_3; cl15866 323097010264 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 323097010265 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 323097010266 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 323097010267 Family description; Region: UvrD_C_2; cl15862 323097010268 Replication protein; Region: Rep_1; cl02412 323097010269 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097010270 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 323097010271 AAA domain; Region: AAA_13; pfam13166 323097010272 AAA domain; Region: AAA_13; pfam13166 323097010273 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 323097010274 Q-loop/lid; other site 323097010275 ABC transporter signature motif; other site 323097010276 Walker B; other site 323097010277 D-loop; other site 323097010278 H-loop/switch region; other site 323097010279 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 323097010280 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 323097010281 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 323097010282 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 323097010283 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 323097010284 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 323097010285 multiple promoter invertase; Provisional; Region: mpi; PRK13413 323097010286 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 323097010287 catalytic residues [active] 323097010288 catalytic nucleophile [active] 323097010289 Presynaptic Site I dimer interface [polypeptide binding]; other site 323097010290 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 323097010291 Synaptic Flat tetramer interface [polypeptide binding]; other site 323097010292 Synaptic Site I dimer interface [polypeptide binding]; other site 323097010293 DNA binding site [nucleotide binding] 323097010294 Helix-turn-helix domains; Region: HTH; cl00088 323097010295 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 323097010296 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 323097010297 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 323097010298 active site 323097010299 DNA binding site [nucleotide binding] 323097010300 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 323097010301 DNA binding site [nucleotide binding] 323097010302 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 323097010303 Protein of unknown function, DUF488; Region: DUF488; cl01246 323097010304 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 323097010305 ParA-like protein; Provisional; Region: PHA02518 323097010306 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 323097010307 P-loop; other site 323097010308 Magnesium ion binding site [ion binding]; other site 323097010309 DnaA N-terminal domain; Region: DnaA_N; pfam11638 323097010310 Replication initiator protein A; Region: RPA; cl02339 323097010311 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 323097010312 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 323097010313 catalytic residues [active] 323097010314 catalytic nucleophile [active] 323097010315 Recombinase; Region: Recombinase; pfam07508 323097010316 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 323097010317 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 323097010318 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 323097010319 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 323097010320 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 323097010321 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 323097010322 putative DNA binding site [nucleotide binding]; other site 323097010323 putative homodimer interface [polypeptide binding]; other site 323097010324 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 323097010325 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 323097010326 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 323097010327 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 323097010328 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 323097010329 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 323097010330 GAF domain; Region: GAF_2; pfam13185 323097010331 GAF domain; Region: GAF; cl15785 323097010332 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 323097010333 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 323097010334 putative active site [active] 323097010335 putative NTP binding site [chemical binding]; other site 323097010336 putative nucleic acid binding site [nucleotide binding]; other site 323097010337 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 323097010338 Transposase domain (DUF772); Region: DUF772; cl15789 323097010339 Transposase domain (DUF772); Region: DUF772; cl15789 323097010340 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 323097010341 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 323097010342 Helix-turn-helix domains; Region: HTH; cl00088 323097010343 Winged helix-turn helix; Region: HTH_29; pfam13551 323097010344 Helix-turn-helix domains; Region: HTH; cl00088 323097010345 Integrase core domain; Region: rve; cl01316 323097010346 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 323097010347 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 323097010348 active site 323097010349 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097010350 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 323097010351 catalytic residues [active] 323097010352 catalytic nucleophile [active] 323097010353 Recombinase; Region: Recombinase; pfam07508 323097010354 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 323097010355 ATP-dependent DNA ligase; Reviewed; Region: ligC; PRK08224 323097010356 Adenylation domain of Mycobacterium tuberculosis LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigC; cd07905 323097010357 active site 323097010358 DNA binding site [nucleotide binding] 323097010359 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigC is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigC; cd07970 323097010360 DNA binding site [nucleotide binding] 323097010361 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 323097010362 Ku-core domain; includes the central DNA-binding beta-barrels, polypeptide rings, and the C-terminal arm of Ku proteins. The Ku protein consists of two tightly associated homologous subunits, Ku70 and Ku80, and was originally identified as an autoantigen...; Region: KU; cl02666 323097010363 DNA binding site [nucleotide binding] 323097010364 heterodimer interface [polypeptide binding]; other site 323097010365 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 323097010366 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 323097010367 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 323097010368 active site 323097010369 DNA binding site [nucleotide binding] 323097010370 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 323097010371 DNA binding site [nucleotide binding] 323097010372 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 323097010373 nucleotide binding site [chemical binding]; other site 323097010374 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 323097010375 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 323097010376 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 323097010377 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 323097010378 Walker A motif; other site 323097010379 ATP binding site [chemical binding]; other site 323097010380 Walker B motif; other site 323097010381 arginine finger; other site 323097010382 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 323097010383 Helix-turn-helix domains; Region: HTH; cl00088 323097010384 DNA binding residues [nucleotide binding] 323097010385 Integrase core domain; Region: rve; cl01316 323097010386 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 323097010387 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 323097010388 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 323097010389 motif II; other site 323097010390 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097010391 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 323097010392 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 323097010393 iron-sulfur cluster [ion binding]; other site 323097010394 [2Fe-2S] cluster binding site [ion binding]; other site 323097010395 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 323097010396 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 323097010397 putative DNA binding site [nucleotide binding]; other site 323097010398 putative homodimer interface [polypeptide binding]; other site 323097010399 alpha-crystallin domain (ACD) found in alpha-crystallin-type small heat shock proteins, and a similar domain found in p23 (a cochaperone for Hsp90) and in other p23-like proteins; Region: alpha-crystallin-Hsps_p23-like; cl00175 323097010400 Integrase core domain; Region: rve; cl01316 323097010401 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 323097010402 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 323097010403 Walker A motif; other site 323097010404 ATP binding site [chemical binding]; other site 323097010405 Walker B motif; other site 323097010406 arginine finger; other site 323097010407 DDE superfamily endonuclease; Region: DDE_5; cl02413 323097010408 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 323097010409 transcription termination factor Rho; Provisional; Region: PRK12678 323097010410 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 323097010411 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323097010412 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097010413 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097010414 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323097010415 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097010416 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cl08294 323097010417 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097010418 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 323097010419 Helix-turn-helix domains; Region: HTH; cl00088 323097010420 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 323097010421 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 323097010422 active site 323097010423 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323097010424 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097010425 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097010426 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 323097010427 Catalytic site; other site 323097010428 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 323097010429 Helix-turn-helix domains; Region: HTH; cl00088 323097010430 Low affinity iron permease; Region: Iron_permease; cl12096 323097010431 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 323097010432 Uncharacterized conserved protein [Function unknown]; Region: COG3391 323097010433 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 323097010434 hypothetical protein; Provisional; Region: PRK12472 323097010435 Helix-turn-helix domains; Region: HTH; cl00088 323097010436 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 323097010437 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 323097010438 metal binding site [ion binding]; metal-binding site 323097010439 putative dimer interface [polypeptide binding]; other site 323097010440 Predicted membrane protein [Function unknown]; Region: COG2860 323097010441 UPF0126 domain; Region: UPF0126; pfam03458 323097010442 UPF0126 domain; Region: UPF0126; pfam03458 323097010443 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 323097010444 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 323097010445 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, 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...; Region: Met_dep_hydrolase_A; cd01299 323097010446 active site 323097010447 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 323097010448 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 323097010449 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 323097010450 putative active site [active] 323097010451 metal binding site [ion binding]; metal-binding site 323097010452 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 323097010453 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 323097010454 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 323097010455 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 323097010456 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 323097010457 Integrase core domain; Region: rve; cl01316 323097010458 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cl00217 323097010459 CsbD-like; Region: CsbD; cl15799 323097010460 CheB methylesterase; Region: CheB_methylest; pfam01339 323097010461 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 323097010462 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 323097010463 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 323097010464 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 323097010465 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 323097010466 Transposase domain (DUF772); Region: DUF772; cl15789 323097010467 Transposase domain (DUF772); Region: DUF772; cl15789 323097010468 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097010469 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 323097010470 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097010471 Transposase; Region: DEDD_Tnp_IS110; pfam01548 323097010472 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 323097010473 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 323097010474 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 323097010475 DNA binding site [nucleotide binding] 323097010476 active site 323097010477 Int/Topo IB signature motif; other site 323097010478 catalytic residues [active] 323097010479 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 323097010480 active site 323097010481 Protein of unknown function (DUF3147); Region: DUF3147; pfam11345 323097010482 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 323097010483 active site 323097010484 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 323097010485 Int/Topo IB signature motif; other site 323097010486 active site 323097010487 DNA binding site [nucleotide binding] 323097010488 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 323097010489 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 323097010490 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 323097010491 FAD binding domain; Region: FAD_binding_4; pfam01565 323097010492 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 323097010493 Integrase core domain; Region: rve; cl01316 323097010494 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 323097010495 Winged helix-turn helix; Region: HTH_29; pfam13551 323097010496 Helix-turn-helix domains; Region: HTH; cl00088 323097010497 Helix-turn-helix domains; Region: HTH; cl00088 323097010498 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 323097010499 nudix motif; other site 323097010500 Protein of unknown function (DUF2385); Region: DUF2385; cl11490 323097010501 dihydroorotase; Validated; Region: PRK09060 323097010502 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 323097010503 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 323097010504 active site 323097010505 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 323097010506 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 323097010507 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 323097010508 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 323097010509 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 323097010510 Peptidase C26; Region: Peptidase_C26; pfam07722 323097010511 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 323097010512 catalytic triad [active] 323097010513 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 323097010514 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 323097010515 non-specific DNA binding site [nucleotide binding]; other site 323097010516 salt bridge; other site 323097010517 sequence-specific DNA binding site [nucleotide binding]; other site 323097010518 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 323097010519 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 323097010520 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 323097010521 Fic family protein [Function unknown]; Region: COG3177 323097010522 Fic/DOC family; Region: Fic; cl00960 323097010523 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 323097010524 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 323097010525 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 323097010526 Zn2+ binding site [ion binding]; other site 323097010527 Mg2+ binding site [ion binding]; other site 323097010528 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 323097010529 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 323097010530 SLBB domain; Region: SLBB; pfam10531 323097010531 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384